John Tainer - Publications

Affiliations: 
Scripps Research Institute, La Jolla, La Jolla, CA, United States 
Area:
Biochemistry

353 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Hammel M, Rashid I, Sverzhinsky A, Pourfarjam Y, Tsai MS, Ellenberger T, Pascal JM, Kim IK, Tainer JA, Tomkinson AE. An atypical BRCT-BRCT interaction with the XRCC1 scaffold protein compacts human DNA Ligase IIIα within a flexible DNA repair complex. Nucleic Acids Research. PMID 33330937 DOI: 10.1093/nar/gkaa1188  0.4
2020 Wilson DM, Deacon AM, Duncton MAJ, Pellicena P, Georgiadis MM, Yeh AP, Arvai AS, Moiani D, Tainer JA, Das D. Fragment- and structure-based drug discovery for developing therapeutic agents targeting the DNA Damage Response. Progress in Biophysics and Molecular Biology. PMID 33115610 DOI: 10.1016/j.pbiomolbio.2020.10.005  0.76
2020 Lees-Miller JP, Cobban A, Katsonis P, Bacolla A, Tsutakawa SE, Hammel M, Meek K, Anderson DW, Lichtarge O, Tainer JA, Lees-Miller SP. Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease. Progress in Biophysics and Molecular Biology. PMID 33035590 DOI: 10.1016/j.pbiomolbio.2020.09.010  0.84
2020 Tsutakawa SE, Tsai CL, Yan C, Bralić A, Chazin WJ, Hamdan SM, Schärer OD, Ivanov I, Tainer JA. Envisioning how the prototypic molecular machine TFIIH functions in transcription initiation and DNA repair. Dna Repair. 96: 102972. PMID 33007515 DOI: 10.1016/j.dnarep.2020.102972  0.84
2020 Hammel M, Rosenberg DJ, Bierma J, Hura GL, Lees-Miller SP, Tainer JA. Visualizing functional dynamicity in the DNA-dependent protein kinase holoenzyme DNA-PK complex by integrating SAXS with cryo-EM. Progress in Biophysics and Molecular Biology. PMID 32966823 DOI: 10.1016/j.pbiomolbio.2020.09.003  0.48
2020 Eckelmann BJ, Bacolla A, Wang H, Ye Z, Guerrero EN, Jiang W, El-Zein R, Hegde ML, Tomkinson AE, Tainer JA, Mitra S. XRCC1 promotes replication restart, nascent fork degradation and mutagenic DNA repair in BRCA2-deficient cells. Nar Cancer. 2: zcaa013. PMID 32776008 DOI: 10.1093/narcan/zcaa013  0.4
2020 Tsutakawa SE, Sarker AH, Ng C, Arvai AS, Shin DS, Shih B, Jiang S, Thwin AC, Tsai MS, Willcox A, Her MZ, Trego KS, Raetz AG, Rosenberg D, Bacolla A, ... ... Tainer JA, et al. Human XPG nuclease structure, assembly, and activities with insights for neurodegeneration and cancer from pathogenic mutations. Proceedings of the National Academy of Sciences of the United States of America. PMID 32522879 DOI: 10.1073/pnas.1921311117  0.88
2019 Houl JH, Ye Z, Brosey CA, Balapiti-Modarage LPF, Namjoshi S, Bacolla A, Laverty D, Walker BL, Pourfarjam Y, Warden LS, Babu Chinnam N, Moiani D, Stegeman RA, Chen MK, Hung MC, ... ... Tainer JA, et al. Selective small molecule PARG inhibitor causes replication fork stalling and cancer cell death. Nature Communications. 10: 5654. PMID 31827085 DOI: 10.1038/s41467-019-13508-4  0.36
2019 Hura GL, Hodge CD, Rosenberg D, Guzenko D, Duarte JM, Monastyrskyy B, Grudinin S, Kryshtafovych A, Tainer JA, Fidelis K, Tsutakawa SE. Small angle X-ray scattering-assisted protein structure prediction in CASP13 and emergence of solution structure differences. Proteins. PMID 31589784 DOI: 10.1002/prot.25827  0.84
2019 Yan C, Dodd T, He Y, Tainer JA, Tsutakawa SE, Ivanov I. Transcription preinitiation complex structure and dynamics provide insight into genetic diseases. Nature Structural & Molecular Biology. PMID 31110295 DOI: 10.1038/s41594-019-0220-3  0.84
2019 Appel MJ, Meier KK, Lafrance-Vanasse J, Lim H, Tsai CL, Hedman B, Hodgson KO, Tainer JA, Solomon EI, Bertozzi CR. Formylglycine-generating enzyme binds substrate directly at a mononuclear Cu(I) center to initiate O activation. Proceedings of the National Academy of Sciences of the United States of America. PMID 30824597 DOI: 10.1073/pnas.1818274116  0.44
2019 Syed A, Tainer JA. Charge Transport Communication through DNA by Protein Fe-S Clusters: How Far Is Not Too Far? Acs Central Science. 5: 7-9. PMID 30693320 DOI: 10.1021/acscentsci.8b00909  1
2018 Tang HYH, Shin DS, Hura GL, Yang Y, Hu X, Lightstone FC, McGee MD, Padgett HS, Yannone SM, Tainer JA. Structural control of nonnative ligand binding in engineered mutants of phosphoenolpyruvate carboxykinase. Biochemistry. PMID 30376300 DOI: 10.1021/acs.biochem.8b00963  0.88
2018 Wang JL, Duboc C, Wu Q, Ochi T, Liang S, Tsutakawa SE, Lees-Miller SP, Nadal M, Tainer JA, Blundell TL, Strick TR. Dissection of DNA double-strand-break repair using novel single-molecule forceps. Nature Structural & Molecular Biology. PMID 29786079 DOI: 10.1038/s41594-018-0065-1  0.84
2018 Syed A, Tainer JA. The MRE11-RAD50-NBS1 Complex Conducts the Orchestration of Damage Signaling and Outcomes to Stress in DNA Replication and Repair. Annual Review of Biochemistry. PMID 29709199 DOI: 10.1146/annurev-biochem-062917-012415  1
2018 Moiani D, Ronato DA, Brosey CA, Arvai AS, Syed A, Masson JY, Petricci E, Tainer JA. Targeting Allostery with Avatars to Design Inhibitors Assessed by Cell Activity: Dissecting MRE11 Endo- and Exonuclease Activities. Methods in Enzymology. 601: 205-241. PMID 29523233 DOI: 10.1016/bs.mie.2017.11.030  1
2018 Ogorzalek TL, Hura GL, Belsom A, Burnett KH, Kryshtafovych A, Tainer JA, Rappsilber J, Tsutakawa SE, Fidelis K. Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy. Proteins. PMID 29314274 DOI: 10.1002/prot.25452  0.84
2017 Tsutakawa SE, Thompson MJ, Arvai AS, Neil AJ, Shaw SJ, Algasaier SI, Kim JC, Finger LD, Jardine E, Gotham VJB, Sarker AH, Her MZ, Rashid F, Hamdan SM, Mirkin SM, ... ... Tainer JA, et al. Corrigendum: Phosphate steering by Flap Endonuclease 1 promotes 5'-flap specificity and incision to prevent genome instability. Nature Communications. 8: 16145. PMID 31305777 DOI: 10.1038/ncomms16145  0.84
2017 Tang HYH, Tainer JA, Hura GL. High Resolution Distance Distributions Determined by X-Ray and Neutron Scattering. Advances in Experimental Medicine and Biology. 1009: 167-181. PMID 29218559 DOI: 10.1007/978-981-10-6038-0_10  0.48
2017 Hura GL, Tainer JA. Coiled coils unspring protein origami. Nature Biotechnology. 35: 1044-1045. PMID 29121029 DOI: 10.1038/nbt.4003  0.48
2017 Trewhella J, Duff AP, Durand D, Gabel F, Guss JM, Hendrickson WA, Hura GL, Jacques DA, Kirby NM, Kwan AH, Pérez J, Pollack L, Ryan TM, Sali A, Schneidman-Duhovny D, ... ... Tainer JA, et al. 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallographica. Section D, Structural Biology. 73: 710-728. PMID 28876235 DOI: 10.1107/S2059798317011597  0.48
2017 Tsutakawa SE, Thompson MJ, Arvai AS, Neil AJ, Shaw SJ, Algasaier SI, Kim JC, Finger LD, Jardine E, Gotham VJB, Sarker AH, Her MZ, Rashid F, Hamdan SM, Mirkin SM, ... ... Tainer JA, et al. Phosphate steering by Flap Endonuclease 1 promotes 5'-flap specificity and incision to prevent genome instability. Nature Communications. 8: 15855. PMID 28653660 DOI: 10.1038/ncomms15855  0.84
2017 Rashid F, Harris PD, Zaher MS, Sobhy MA, Joudeh LI, Yan C, Piwonski H, Tsutakawa SE, Ivanov I, Tainer JA, Habuchi S, Hamdan SM. Single-molecule FRET unveils induced-fit mechanism for substrate selectivity in flap endonuclease 1. Elife. 6. PMID 28230529 DOI: 10.7554/eLife.21884  0.84
2016 Lai YT, Hura GL, Dyer KN, Tang HY, Tainer JA, Yeates TO. Designing and defining dynamic protein cage nanoassemblies in solution. Science Advances. 2: e1501855. PMID 27990489 DOI: 10.1126/sciadv.1501855  0.48
2016 Hammel M, Yu Y, Radhakrishnan SK, Chokshi C, Tsai MS, Matsumoto Y, Kuzdovich M, Remesh SG, Fang S, Tomkinson AE, Lees-Miller SP, Tainer JA. An Intrinsically Disordered APLF Links Ku, DNA-PKcs and XRCC4-DNA Ligase IV in an Extended Flexible Non-Homologous End Joining Complex. The Journal of Biological Chemistry. PMID 27875301 DOI: 10.1074/jbc.M116.751867  0.4
2016 Stingele J, Bellelli R, Alte F, Hewitt G, Sarek G, Maslen SL, Tsutakawa SE, Borg A, Kjær S, Tainer JA, Skehel JM, Groll M, Boulton SJ. Mechanism and Regulation of DNA-Protein Crosslink Repair by the DNA-Dependent Metalloprotease SPRTN. Molecular Cell. 64: 688-703. PMID 27871365 DOI: 10.1016/j.molcel.2016.09.031  0.84
2016 Brosey CA, Ho C, Long WZ, Singh S, Burnett K, Hura GL, Nix JC, Bowman GR, Ellenberger T, Tainer JA. Defining NADH-Driven Allostery Regulating Apoptosis-Inducing Factor. Structure (London, England : 1993). PMID 27818101 DOI: 10.1016/j.str.2016.09.012  0.48
2016 Youngblut MD, Tsai CL, Clark IC, Carlson HK, Maglaqui AP, Gau-Pan PS, Redford SA, Wong A, Tainer JA, Coates JD. Perchlorate Reductase is Distinguished by Active Site Aromatic Gate Residues. The Journal of Biological Chemistry. PMID 26940877 DOI: 10.1074/jbc.M116.714618  1
2016 Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN. RNF8 E3 Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity that is Essential for DNA Double-Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. The Journal of Biological Chemistry. PMID 26903517 DOI: 10.1074/jbc.M116.715698  1
2015 Brunette TJ, Parmeggiani F, Huang PS, Bhabha G, Ekiert DC, Tsutakawa SE, Hura GL, Tainer JA, Baker D. Exploring the repeat protein universe through computational protein design. Nature. PMID 26675729 DOI: 10.1038/nature16162  0.84
2015 Shin DS, Tainer JA. Molecular biology: DNA repair without flipping out. Nature. PMID 26524524 DOI: 10.1038/nature15646  1
2015 Chaudhury P, Neiner T, D'Imprima E, Banerjee A, Reindl S, Ghosh A, Arvai AS, Mills DJ, van der Does C, Tainer JA, Vonck J, Albers SV. The Nucleotide-Dependent Interaction of FlaH and FlaI is Essential for Assembly and Function of the Archaellum Motor. Molecular Microbiology. PMID 26508112 DOI: 10.1111/mmi.13260  1
2015 Pratt AJ, DiDonato M, Shin DS, Cabelli DE, Bruns CK, Belzer CA, Gorringe AR, Langford PR, Tabatabai LB, Kroll JS, Tainer JA, Getzoff ED. Structural, functional and immunogenic insights on Cu,Zn Superoxide Dismutase pathogenic virulence factors from Neisseria meningitidis and Brucella abortus. Journal of Bacteriology. PMID 26459556 DOI: 10.1128/JB.00343-15  1
2015 Tsai CL, Williams GJ, Perry JJ, Tainer JA. An AAA+ ATPase Clamshell Targets Transposition. Cell. 162: 701-3. PMID 26276624 DOI: 10.1016/j.cell.2015.07.050  1
2015 He W, Scharadin TM, Saldana M, Gellner C, Hoang-Phou S, Takanishi C, Hura GL, Tainer JA, Carraway KL, Henderson PT, Coleman MA. Cell-free expression of functional receptor tyrosine kinases. Scientific Reports. 5: 12896. PMID 26274523 DOI: 10.1038/srep12896  0.48
2015 Kukshal V, Kim IK, Hura GL, Tomkinson AE, Tainer JA, Ellenberger T. Human DNA ligase III bridges two DNA ends to promote specific intermolecular DNA end joining. Nucleic Acids Research. 43: 7021-31. PMID 26130724 DOI: 10.1093/nar/gkv652  0.48
2015 Tsutakawa SE, Yan C, Xu X, Zhuang Z, Todd Washington M, Tainer JA, Ivanov I. 112 Structurally distinct ubiquitin- and SUMO-modified PCNA: implications for their distinct roles in the DNA damage response. Journal of Biomolecular Structure & Dynamics. 33: 70-1. PMID 26103323 DOI: 10.1080/07391102.2015.1032745  0.84
2015 Tsutakawa SE, Tainer JA. Bending Forks and Wagging Dogs--It's about the DNA 3' Tail. Molecular Cell. 58: 972-3. PMID 26091346 DOI: 10.1016/j.molcel.2015.06.005  1
2015 Rambo RP, Tainer JA. Modeling macromolecular motions by x-ray-scattering-constrained molecular dynamics. Biophysical Journal. 108: 2421-3. PMID 25992719 DOI: 10.1016/j.bpj.2015.04.023  1
2015 Tainer JA. Dynamic structures in DNA damage responses & cancer. Progress in Biophysics and Molecular Biology. 117: 129-33. PMID 25934179 DOI: 10.1016/j.pbiomolbio.2015.04.003  1
2015 Banerjee A, Tsai CL, Chaudhury P, Tripp P, Arvai AS, Ishida JP, Tainer JA, Albers SV. FlaF Is a β-Sandwich Protein that Anchors the Archaellum in the Archaeal Cell Envelope by Binding the S-Layer Protein. Structure (London, England : 1993). 23: 863-72. PMID 25865246 DOI: 10.1016/j.str.2015.03.001  1
2015 Tsutakawa SE, Yan C, Xu X, Weinacht CP, Freudenthal BD, Yang K, Zhuang Z, Washington MT, Tainer JA, Ivanov I. Structurally distinct ubiquitin- and sumo-modified PCNA: implications for their distinct roles in the DNA damage response. Structure (London, England : 1993). 23: 724-33. PMID 25773143 DOI: 10.1016/j.str.2015.02.008  1
2015 Fuss JO, Tsai CL, Ishida JP, Tainer JA. Emerging critical roles of Fe-S clusters in DNA replication and repair. Biochimica Et Biophysica Acta. 1853: 1253-71. PMID 25655665 DOI: 10.1016/j.bbamcr.2015.01.018  1
2015 Lafrance-Vanasse J, Williams GJ, Tainer JA. Envisioning the dynamics and flexibility of Mre11-Rad50-Nbs1 complex to decipher its roles in DNA replication and repair. Progress in Biophysics and Molecular Biology. 117: 182-93. PMID 25576492 DOI: 10.1016/j.pbiomolbio.2014.12.004  1
2015 Tsai CL, Burkinshaw BJ, Strynadka NC, Tainer JA. The Salmonella type III secretion system virulence effector forms a new hexameric chaperone assembly for export of effector/chaperone complexes. Journal of Bacteriology. 197: 672-5. PMID 25488302 DOI: 10.1128/JB.02524-14  1
2015 He W, Scharadin TM, Saldana M, Gellner C, Hoang-Phou S, Takanishi C, Hura GL, Tainer JA, Carraway KL, Henderson PT, Coleman MA. Cell-free expression of functional receptor tyrosine kinases Scientific Reports. 5. DOI: 10.1038/srep12896  1
2014 Reyes FE, Schwartz CR, Tainer JA, Rambo RP. Methods for using new conceptual tools and parameters to assess RNA structure by small-angle X-ray scattering. Methods in Enzymology. 549: 235-63. PMID 25432752 DOI: 10.1016/B978-0-12-801122-5.00011-8  1
2014 Lai YT, Reading E, Hura GL, Tsai KL, Laganowsky A, Asturias FJ, Tainer JA, Robinson CV, Yeates TO. Structure of a designed protein cage that self-assembles into a highly porous cube. Nature Chemistry. 6: 1065-71. PMID 25411884 DOI: 10.1038/nchem.2107  1
2014 Tsai CL, Shi Y, Tainer JA. How substrate specificity is imposed on a histone demethylase--lessons from KDM2A. Genes & Development. 28: 1735-8. PMID 25128493 DOI: 10.1101/gad.249755.114  1
2014 Holton JM, Classen S, Frankel KA, Tainer JA. The R-factor gap in macromolecular crystallography: an untapped potential for insights on accurate structures. The Febs Journal. 281: 4046-60. PMID 25040949 DOI: 10.1111/febs.12922  1
2014 McTernan PM, Chandrayan SK, Wu CH, Vaccaro BJ, Lancaster WA, Yang Q, Fu D, Hura GL, Tainer JA, Adams MW. Intact functional fourteen-subunit respiratory membrane-bound [NiFe]-hydrogenase complex of the hyperthermophilic archaeon Pyrococcus furiosus. The Journal of Biological Chemistry. 289: 19364-72. PMID 24860091 DOI: 10.1074/jbc.M114.567255  1
2014 Mason AC, Rambo RP, Greer B, Pritchett M, Tainer JA, Cortez D, Eichman BF. A structure-specific nucleic acid-binding domain conserved among DNA repair proteins. Proceedings of the National Academy of Sciences of the United States of America. 111: 7618-23. PMID 24821763 DOI: 10.1073/pnas.1324143111  1
2014 Tsutakawa SE, Lafrance-Vanasse J, Tainer JA. The cutting edges in DNA repair, licensing, and fidelity: DNA and RNA repair nucleases sculpt DNA to measure twice, cut once. Dna Repair. 19: 95-107. PMID 24754999 DOI: 10.1016/j.dnarep.2014.03.022  1
2014 Groocock LM, Nie M, Prudden J, Moiani D, Wang T, Cheltsov A, Rambo RP, Arvai AS, Hitomi C, Tainer JA, Luger K, Perry JJ, Lazzerini-Denchi E, Boddy MN. RNF4 interacts with both SUMO and nucleosomes to promote the DNA damage response. Embo Reports. 15: 601-8. PMID 24714598 DOI: 10.1002/embr.201338369  1
2014 Shin DS, Pratt AJ, Tainer JA. Archaeal genome guardians give insights into eukaryotic DNA replication and damage response proteins. Archaea (Vancouver, B.C.). 2014: 206735. PMID 24701133 DOI: 10.1155/2014/206735  1
2014 Seeger F, Quintyn R, Tanimoto A, Williams GJ, Tainer JA, Wysocki VH, Garcin ED. Interfacial residues promote an optimal alignment of the catalytic center in human soluble guanylate cyclase: heterodimerization is required but not sufficient for activity. Biochemistry. 53: 2153-65. PMID 24669844 DOI: 10.1021/bi500129k  1
2014 Williams GJ, Hammel M, Radhakrishnan SK, Ramsden D, Lees-Miller SP, Tainer JA. Structural insights into NHEJ: building up an integrated picture of the dynamic DSB repair super complex, one component and interaction at a time. Dna Repair. 17: 110-20. PMID 24656613 DOI: 10.1016/j.dnarep.2014.02.009  1
2014 Roset R, Inagaki A, Hohl M, Brenet F, Lafrance-Vanasse J, Lange J, Scandura JM, Tainer JA, Keeney S, Petrini JH. The Rad50 hook domain regulates DNA damage signaling and tumorigenesis. Genes & Development. 28: 451-62. PMID 24532689 DOI: 10.1101/gad.236745.113  1
2014 Deshpande RA, Williams GJ, Limbo O, Williams RS, Kuhnlein J, Lee JH, Classen S, Guenther G, Russell P, Tainer JA, Paull TT. ATP-driven Rad50 conformations regulate DNA tethering, end resection, and ATM checkpoint signaling. The Embo Journal. 33: 482-500. PMID 24493214 DOI: 10.1002/embj.201386100  1
2014 Shibata A, Moiani D, Arvai AS, Perry J, Harding SM, Genois MM, Maity R, van Rossum-Fikkert S, Kertokalio A, Romoli F, Ismail A, Ismalaj E, Petricci E, Neale MJ, Bristow RG, ... ... Tainer JA, et al. DNA double-strand break repair pathway choice is directed by distinct MRE11 nuclease activities. Molecular Cell. 53: 7-18. PMID 24316220 DOI: 10.1016/j.molcel.2014.01.008  1
2014 Pieper U, Webb BM, Dong GQ, Schneidman-Duhovny D, Fan H, Kim SJ, Khuri N, Spill YG, Weinkam P, Hammel M, Tainer JA, Nilges M, Sali A. ModBase, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Research. 42: D336-46. PMID 24271400 DOI: 10.1093/nar/gkt1144  1
2014 Dyer KN, Hammel M, Rambo RP, Tsutakawa SE, Rodic I, Classen S, Tainer JA, Hura GL. High-throughput SAXS for the characterization of biomolecules in solution: a practical approach. Methods in Molecular Biology (Clifton, N.J.). 1091: 245-58. PMID 24203338 DOI: 10.1007/978-1-62703-691-7_18  1
2014 Zhao W, Saro D, Hammel M, Kwon Y, Xu Y, Rambo RP, Williams GJ, Chi P, Lu L, Pezza RJ, Camerini-Otero RD, Tainer JA, Wang HW, Sung P. Mechanistic insights into the role of Hop2-Mnd1 in meiotic homologous DNA pairing. Nucleic Acids Research. 42: 906-17. PMID 24150939 DOI: 10.1093/nar/gkt924  1
2013 Tsai CL, Tainer JA. Probing DNA by 2-OG-dependent dioxygenase. Cell. 155: 1448-50. PMID 24360270 DOI: 10.1016/j.cell.2013.12.002  1
2013 Hura GL, Tsai CL, Claridge SA, Mendillo ML, Smith JM, Williams GJ, Mastroianni AJ, Alivisatos AP, Putnam CD, Kolodner RD, Tainer JA. DNA conformations in mismatch repair probed in solution by X-ray scattering from gold nanocrystals. Proceedings of the National Academy of Sciences of the United States of America. 110: 17308-13. PMID 24101514 DOI: 10.1073/pnas.1308595110  1
2013 Crown KN, Savytskyy OP, Malik SB, Logsdon J, Williams RS, Tainer JA, Zolan ME. A mutation in the FHA domain of Coprinus cinereus Nbs1 Leads to Spo11-independent meiotic recombination and chromosome segregation. G3 (Bethesda, Md.). 3: 1927-43. PMID 24062528 DOI: 10.1534/g3.113.007906  1
2013 Liu X, Hammel M, He Y, Tainer JA, Jeng US, Zhang L, Wang S, Wang X. Structural insights into the interaction of IL-33 with its receptors. Proceedings of the National Academy of Sciences of the United States of America. 110: 14918-23. PMID 23980170 DOI: 10.1073/pnas.1308651110  1
2013 Schneidman-Duhovny D, Hammel M, Tainer JA, Sali A. Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophysical Journal. 105: 962-74. PMID 23972848 DOI: 10.1016/j.bpj.2013.07.020  1
2013 Trewhella J, Hendrickson WA, Kleywegt GJ, Sali A, Sato M, Schwede T, Svergun DI, Tainer JA, Westbrook J, Berman HM. Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB. Structure (London, England : 1993). 21: 875-81. PMID 23747111 DOI: 10.1016/j.str.2013.04.020  1
2013 Hura GL, Budworth H, Dyer KN, Rambo RP, Hammel M, McMurray CT, Tainer JA. Comprehensive macromolecular conformations mapped by quantitative SAXS analyses. Nature Methods. 10: 453-4. PMID 23624664 DOI: 10.1038/nmeth.2453  1
2013 Rambo RP, Tainer JA. Accurate assessment of mass, models and resolution by small-angle scattering. Nature. 496: 477-81. PMID 23619693 DOI: 10.1038/nature12070  1
2013 Hegde ML, Tsutakawa SE, Hegde PM, Holthauzen LM, Li J, Oezguen N, Hilser VJ, Tainer JA, Mitra S. The disordered C-terminal domain of human DNA glycosylase NEIL1 contributes to its stability via intramolecular interactions. Journal of Molecular Biology. 425: 2359-71. PMID 23542007 DOI: 10.1016/j.jmb.2013.03.030  1
2013 Rambo RP, Tainer JA. Super-resolution in solution X-ray scattering and its applications to structural systems biology. Annual Review of Biophysics. 42: 415-41. PMID 23495971 DOI: 10.1146/annurev-biophys-083012-130301  1
2013 Mahaney BL, Hammel M, Meek K, Tainer JA, Lees-Miller SP. XRCC4 and XLF form long helical protein filaments suitable for DNA end protection and alignment to facilitate DNA double strand break repair. Biochemistry and Cell Biology = Biochimie Et Biologie Cellulaire. 91: 31-41. PMID 23442139 DOI: 10.1139/bcb-2012-0058  1
2013 Reindl S, Ghosh A, Williams GJ, Lassak K, Neiner T, Henche AL, Albers SV, Tainer JA. Insights into FlaI functions in archaeal motor assembly and motility from structures, conformations, and genetics. Molecular Cell. 49: 1069-82. PMID 23416110 DOI: 10.1016/j.molcel.2013.01.014  1
2013 Classen S, Hura GL, Holton JM, Rambo RP, Rodic I, McGuire PJ, Dyer K, Hammel M, Meigs G, Frankel KA, Tainer JA. Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source. Journal of Applied Crystallography. 46: 1-13. PMID 23396808 DOI: 10.1107/S0021889812048698  1
2013 Perry JJ, Tainer JA. Developing advanced X-ray scattering methods combined with crystallography and computation. Methods (San Diego, Calif.). 59: 363-71. PMID 23376408 DOI: 10.1016/j.ymeth.2013.01.005  1
2013 Tsutakawa SE, Shin DS, Mol CD, Izumi T, Arvai AS, Mantha AK, Szczesny B, Ivanov IN, Hosfield DJ, Maiti B, Pique ME, Frankel KA, Hitomi K, Cunningham RP, Mitra S, ... Tainer JA, et al. Conserved structural chemistry for incision activity in structurally non-homologous apurinic/apyrimidinic endonuclease APE1 and endonuclease IV DNA repair enzymes. The Journal of Biological Chemistry. 288: 8445-55. PMID 23355472 DOI: 10.1074/jbc.M112.422774  1
2013 Brosey CA, Yan C, Tsutakawa SE, Heller WT, Rambo RP, Tainer JA, Ivanov I, Chazin WJ. A new structural framework for integrating replication protein A into DNA processing machinery. Nucleic Acids Research. 41: 2313-27. PMID 23303776 DOI: 10.1093/nar/gks1332  1
2013 Dalhus B, Nilsen L, Korvald H, Huffman J, Forstrøm RJ, McMurray CT, Alseth I, Tainer JA, Bjørås M. Sculpting of DNA at abasic sites by DNA glycosylase homolog mag2. Structure (London, England : 1993). 21: 154-66. PMID 23245849 DOI: 10.1016/j.str.2012.11.004  1
2012 Lee KC, Padget K, Curtis H, Cowell IG, Moiani D, Sondka Z, Morris NJ, Jackson GH, Cockell SJ, Tainer JA, Austin CA. MRE11 facilitates the removal of human topoisomerase II complexes from genomic DNA. Biology Open. 1: 863-73. PMID 23213480 DOI: 10.1242/bio.20121834  1
2012 Wilkinson OJ, Latypov V, Tubbs JL, Millington CL, Morita R, Blackburn H, Marriott A, McGown G, Thorncroft M, Watson AJ, Connolly BA, Grasby JA, Masui R, Hunter CA, Tainer JA, et al. Alkyltransferase-like protein (Atl1) distinguishes alkylated guanines for DNA repair using cation-Ï€ interactions. Proceedings of the National Academy of Sciences of the United States of America. 109: 18755-60. PMID 23112169 DOI: 10.1073/pnas.1209451109  1
2012 Shi K, Kurahashi K, Gao R, Tsutakawa SE, Tainer JA, Pommier Y, Aihara H. Structural basis for recognition of 5′-phosphotyrosine adducts by Tdp2 Nature Structural and Molecular Biology. 19: 1372-1377. PMID 23104058 DOI: 10.1038/nsmb.2423  1
2012 Limbo O, Moiani D, Kertokalio A, Wyman C, Tainer JA, Russell P. Mre11 ATLD17/18 mutation retains Tel1/ATM activity but blocks DNA double-strand break repair. Nucleic Acids Research. 40: 11435-49. PMID 23080121 DOI: 10.1093/nar/gks954  1
2012 Finger LD, Atack JM, Tsutakawa S, Classen S, Tainer J, Grasby J, Shen B. The wonders of flap endonucleases: structure, function, mechanism and regulation. Sub-Cellular Biochemistry. 62: 301-26. PMID 22918592 DOI: 10.1007/978-94-007-4572-8_16  1
2012 Omanakuttan A, Nambiar J, Harris RM, Bose C, Pandurangan N, Varghese RK, Kumar GB, Tainer JA, Banerji A, Perry JJ, Nair BG. Anacardic acid inhibits the catalytic activity of matrix metalloproteinase-2 and matrix metalloproteinase-9. Molecular Pharmacology. 82: 614-22. PMID 22745359 DOI: 10.1124/mol.112.079020  1
2012 Latypov VF, Tubbs JL, Watson AJ, Marriott AS, McGown G, Thorncroft M, Wilkinson OJ, Senthong P, Butt A, Arvai AS, Millington CL, Povey AC, Williams DM, Santibanez-Koref MF, Tainer JA, et al. Atl1 regulates choice between global genome and transcription-coupled repair of O(6)-alkylguanines. Molecular Cell. 47: 50-60. PMID 22658721 DOI: 10.1016/j.molcel.2012.04.028  1
2012 Kim IK, Kiefer JR, Ho CM, Stegeman RA, Classen S, Tainer JA, Ellenberger T. Structure of mammalian poly(ADP-ribose) glycohydrolase reveals a flexible tyrosine clasp as a substrate-binding element. Nature Structural & Molecular Biology. 19: 653-6. PMID 22609859 DOI: 10.1038/nsmb.2305  1
2012 Querol-Audí J, Yan C, Xu X, Tsutakawa SE, Tsai MS, Tainer JA, Cooper PK, Nogales E, Ivanov I. Repair complexes of FEN1 endonuclease, DNA, and Rad9-Hus1-Rad1 are distinguished from their PCNA counterparts by functionally important stability. Proceedings of the National Academy of Sciences of the United States of America. 109: 8528-33. PMID 22586102 DOI: 10.1073/pnas.1121116109  1
2012 Christie JM, Hitomi K, Arvai AS, Hartfield KA, Mettlen M, Pratt AJ, Tainer JA, Getzoff ED. Structural tuning of the fluorescent protein iLOV for improved photostability. The Journal of Biological Chemistry. 287: 22295-304. PMID 22573334 DOI: 10.1074/jbc.M111.318881  1
2012 Roberts VA, Pique ME, Hsu S, Li S, Slupphaug G, Rambo RP, Jamison JW, Liu T, Lee JH, Tainer JA, Ten Eyck LF, Woods VL. Combining H/D exchange mass spectroscopy and computational docking reveals extended DNA-binding surface on uracil-DNA glycosylase. Nucleic Acids Research. 40: 6070-81. PMID 22492624 DOI: 10.1093/nar/gks291  1
2012 Ruigrok VJ, van Duijn E, Barendregt A, Dyer K, Tainer JA, Stoltenburg R, Strehlitz B, Levisson M, Smidt H, van der Oost J. Kinetic and stoichiometric characterisation of streptavidin-binding aptamers. Chembiochem : a European Journal of Chemical Biology. 13: 829-36. PMID 22416028 DOI: 10.1002/cbic.201100774  1
2012 Yamagata A, Milgotina E, Scanlon K, Craig L, Tainer JA, Donnenberg MS. Structure of an essential type IV pilus biogenesis protein provides insights into pilus and type II secretion systems. Journal of Molecular Biology. 419: 110-24. PMID 22387466 DOI: 10.1016/j.jmb.2012.02.041  1
2012 Patel N, Atack JM, Finger LD, Exell JC, Thompson P, Tsutakawa S, Tainer JA, Williams DM, Grasby JA. Flap endonucleases pass 5'-flaps through a flexible arch using a disorder-thread-order mechanism to confer specificity for free 5'-ends. Nucleic Acids Research. 40: 4507-19. PMID 22319208 DOI: 10.1093/nar/gks051  1
2012 Tsutakawa SE, Tainer JA. Double strand binding-single strand incision mechanism for human flap endonuclease: implications for the superfamily. Mechanisms of Ageing and Development. 133: 195-202. PMID 22244820 DOI: 10.1016/j.mad.2011.11.009  1
2012 Hitomi K, Arvai AS, Yamamoto J, Hitomi C, Teranishi M, Hirouchi T, Yamamoto K, Iwai S, Tainer JA, Hidema J, Getzoff ED. Eukaryotic class II cyclobutane pyrimidine dimer photolyase structure reveals basis for improved ultraviolet tolerance in plants. The Journal of Biological Chemistry. 287: 12060-9. PMID 22170053 DOI: 10.1074/jbc.M111.244020  1
2012 Yannone SM, Hartung S, Menon AL, Adams MW, Tainer JA. Metals in biology: defining metalloproteomes. Current Opinion in Biotechnology. 23: 89-95. PMID 22138493 DOI: 10.1016/j.copbio.2011.11.005  1
2012 Grasby JA, Finger LD, Tsutakawa SE, Atack JM, Tainer JA. Unpairing and gating: sequence-independent substrate recognition by FEN superfamily nucleases. Trends in Biochemical Sciences. 37: 74-84. PMID 22118811 DOI: 10.1016/j.tibs.2011.10.003  1
2011 Hartung S, Arvai AS, Wood T, Kolappan S, Shin DS, Craig L, Tainer JA. Ultrahigh resolution and full-length pilin structures with insights for filament assembly, pathogenic functions, and vaccine potential. The Journal of Biological Chemistry. 286: 44254-65. PMID 22027840 DOI: 10.1074/jbc.M111.297242  1
2011 Tsutakawa SE, Van Wynsberghe AW, Freudenthal BD, Weinacht CP, Gakhar L, Washington MT, Zhuang Z, Tainer JA, Ivanov I. Solution X-ray scattering combined with computational modeling reveals multiple conformations of covalently bound ubiquitin on PCNA. Proceedings of the National Academy of Sciences of the United States of America. 108: 17672-7. PMID 22006297 DOI: 10.1073/pnas.1110480108  1
2011 Hammel M, Rey M, Yu Y, Mani RS, Classen S, Liu M, Pique ME, Fang S, Mahaney BL, Weinfeld M, Schriemer DC, Lees-Miller SP, Tainer JA. XRCC4 protein interactions with XRCC4-like factor (XLF) create an extended grooved scaffold for DNA ligation and double strand break repair. The Journal of Biological Chemistry. 286: 32638-50. PMID 21775435 DOI: 10.1074/jbc.M111.272641  1
2011 Tomlinson CG, Syson K, Sengerová B, Atack JM, Sayers JR, Swanson L, Tainer JA, Williams NH, Grasby JA. Neutralizing mutations of carboxylates that bind metal 2 in T5 flap endonuclease result in an enzyme that still requires two metal ions. The Journal of Biological Chemistry. 286: 30878-87. PMID 21734257 DOI: 10.1074/jbc.M111.230391  1
2011 Tubbs JL, Tainer JA. P53 conformational switching for selectivity may reveal a general solution for specific DNA binding. The Embo Journal. 30: 2099-100. PMID 21629273 DOI: 10.1038/emboj.2011.133  1
2011 Fuss JO, Tainer JA. XPB and XPD helicases in TFIIH orchestrate DNA duplex opening and damage verification to coordinate repair with transcription and cell cycle via CAK kinase. Dna Repair. 10: 697-713. PMID 21571596 DOI: 10.1016/j.dnarep.2011.04.028  1
2011 Trego KS, Chernikova SB, Davalos AR, Perry JJ, Finger LD, Ng C, Tsai MS, Yannone SM, Tainer JA, Campisi J, Cooper PK. The DNA repair endonuclease XPG interacts directly and functionally with the WRN helicase defective in Werner syndrome. Cell Cycle (Georgetown, Tex.). 10: 1998-2007. PMID 21558802 DOI: 10.4161/cc.10.12.15878  1
2011 Kazantsev AV, Rambo RP, Karimpour S, Santalucia J, Tainer JA, Pace NR. Solution structure of RNase P RNA. Rna (New York, N.Y.). 17: 1159-71. PMID 21531920 DOI: 10.1261/rna.2563511  1
2011 Rambo RP, Tainer JA. Characterizing flexible and intrinsically unstructured biological macromolecules by SAS using the Porod-Debye law. Biopolymers. 95: 559-71. PMID 21509745 DOI: 10.1002/bip.21638  1
2011 Ghosh A, Hartung S, van der Does C, Tainer JA, Albers SV. Archaeal flagellar ATPase motor shows ATP-dependent hexameric assembly and activity stimulation by specific lipid binding. The Biochemical Journal. 437: 43-52. PMID 21506936 DOI: 10.1042/BJ20110410  1
2011 Tsutakawa SE, Classen S, Chapados BR, Arvai AS, Finger LD, Guenther G, Tomlinson CG, Thompson P, Sarker AH, Shen B, Cooper PK, Grasby JA, Tainer JA. Human flap endonuclease structures, DNA double-base flipping, and a unified understanding of the FEN1 superfamily. Cell. 145: 198-211. PMID 21496641 DOI: 10.1016/j.cell.2011.03.004  1
2011 Perry JJ, Tainer JA. All stressed out without ATM kinase. Science Signaling. 4: pe18. PMID 21467296 DOI: 10.1126/scisignal.2001961  1
2011 Prudden J, Perry JJ, Nie M, Vashisht AA, Arvai AS, Hitomi C, Guenther G, Wohlschlegel JA, Tainer JA, Boddy MN. DNA repair and global sumoylation are regulated by distinct Ubc9 noncovalent complexes. Molecular and Cellular Biology. 31: 2299-310. PMID 21444718 DOI: 10.1128/MCB.05188-11  1
2011 Williams GJ, Williams RS, Williams JS, Moncalian G, Arvai AS, Limbo O, Guenther G, SilDas S, Hammel M, Russell P, Tainer JA. ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair. Nature Structural & Molecular Biology. 18: 423-31. PMID 21441914 DOI: 10.1038/nsmb.2038  1
2011 Heideker J, Prudden J, Perry JJ, Tainer JA, Boddy MN. SUMO-targeted ubiquitin ligase, Rad60, and Nse2 SUMO ligase suppress spontaneous Top1-mediated DNA damage and genome instability. Plos Genetics. 7: e1001320. PMID 21408210 DOI: 10.1371/journal.pgen.1001320  1
2011 Lancaster WA, Praissman JL, Poole FL, Cvetkovic A, Menon AL, Scott JW, Jenney FE, Thorgersen MP, Kalisiak E, Apon JV, Trauger SA, Siuzdak G, Tainer JA, Adams MW. A computational framework for proteome-wide pursuit and prediction of metalloproteins using ICP-MS and MS/MS data. Bmc Bioinformatics. 12: 64. PMID 21356119 DOI: 10.1186/1471-2105-12-64  1
2011 Arthur DC, Edwards RA, Tsutakawa S, Tainer JA, Frost LS, Glover JN. Mapping interactions between the RNA chaperone FinO and its RNA targets. Nucleic Acids Research. 39: 4450-63. PMID 21278162 DOI: 10.1093/nar/gkr025  1
2011 Wellhauser L, Luna-Chavez C, D'Antonio C, Tainer J, Bear CE. ATP induces conformational changes in the carboxyl-terminal region of ClC-5. The Journal of Biological Chemistry. 286: 6733-41. PMID 21173145 DOI: 10.1074/jbc.M110.175877  1
2011 Lintner NG, Frankel KA, Tsutakawa SE, Alsbury DL, Copié V, Young MJ, Tainer JA, Lawrence CM. The structure of the CRISPR-associated protein Csa3 provides insight into the regulation of the CRISPR/Cas system. Journal of Molecular Biology. 405: 939-55. PMID 21093452 DOI: 10.1016/j.jmb.2010.11.019  1
2010 Rambo RP, Williams GJ, Tainer JA. Achieving fidelity in homologous recombination despite extreme complexity: informed decisions by molecular profiling. Molecular Cell. 40: 347-8. PMID 21070960 DOI: 10.1016/j.molcel.2010.10.032  1
2010 Hammel M, Yu Y, Fang S, Lees-Miller SP, Tainer JA. XLF regulates filament architecture of the XRCC4·ligase IV complex. Structure (London, England : 1993). 18: 1431-42. PMID 21070942 DOI: 10.1016/j.str.2010.09.009  1
2010 Williams GJ, Lees-Miller SP, Tainer JA. Mre11-Rad50-Nbs1 conformations and the control of sensing, signaling, and effector responses at DNA double-strand breaks. Dna Repair. 9: 1299-306. PMID 21035407 DOI: 10.1016/j.dnarep.2010.10.001  1
2010 Dobbs TA, Tainer JA, Lees-Miller SP. A structural model for regulation of NHEJ by DNA-PKcs autophosphorylation. Dna Repair. 9: 1307-14. PMID 21030321 DOI: 10.1016/j.dnarep.2010.09.019  1
2010 Classen S, Rodic I, Holton J, Hura GL, Hammel M, Tainer JA. Software for the high-throughput collection of SAXS data using an enhanced Blu-Ice/DCS control system. Journal of Synchrotron Radiation. 17: 774-81. PMID 20975223 DOI: 10.1107/S0909049510028566  1
2010 Kashiwagi S, Kuraoka I, Fujiwara Y, Hitomi K, Cheng QJ, Fuss JO, Shin DS, Masutani C, Tainer JA, Hanaoka F, Iwai S. Characterization of a Y-Family DNA Polymerase eta from the Eukaryotic Thermophile Alvinella pompejana. Journal of Nucleic Acids. 2010. PMID 20936172 DOI: 10.4061/2010/701472  1
2010 Perry JJ, Shin DS, Tainer JA. Amyotrophic lateral sclerosis. Advances in Experimental Medicine and Biology. 685: 9-20. PMID 20687491 DOI: 10.1007/978-1-4419-6448-9_2  1
2010 Rosenfeld RJ, Bonaventura J, Szymczyna BR, MacCoss MJ, Arvai AS, Yates JR, Tainer JA, Getzoff ED. Nitric-oxide synthase forms N-NO-pterin and S-NO-cys: implications for activity, allostery, and regulation. The Journal of Biological Chemistry. 285: 31581-9. PMID 20659888 DOI: 10.1074/jbc.M109.072496  0.92
2010 Rahal EA, Henricksen LA, Li Y, Williams RS, Tainer JA, Dixon K. ATM regulates Mre11-dependent DNA end-degradation and microhomology-mediated end joining. Cell Cycle (Georgetown, Tex.). 9: 2866-77. PMID 20647759 DOI: 10.4161/cc.9.14.12363  1
2010 Cvetkovic A, Menon AL, Thorgersen MP, Scott JW, Poole FL, Jenney FE, Lancaster WA, Praissman JL, Shanmukh S, Vaccaro BJ, Trauger SA, Kalisiak E, Apon JV, Siuzdak G, Yannone SM, ... Tainer JA, et al. Microbial metalloproteomes are largely uncharacterized. Nature. 466: 779-82. PMID 20639861 DOI: 10.1038/nature09265  1
2010 Lim MS, Ng D, Zong Z, Arvai AS, Taylor RK, Tainer JA, Craig L. Vibrio cholerae El Tor TcpA crystal structure and mechanism for pilus-mediated microcolony formation. Molecular Microbiology. 77: 755-70. PMID 20545841 DOI: 10.1111/j.1365-2958.2010.07244.x  1
2010 Cotner-Gohara E, Kim IK, Hammel M, Tainer JA, Tomkinson AE, Ellenberger T. Human DNA ligase III recognizes DNA ends by dynamic switching between two DNA-bound states Biochemistry. 49: 6165-6176. PMID 20518483 DOI: 10.1021/bi100503w  1
2010 Perry JJP, Asaithamby A, Barnebey A, Kiamanesch F, Chen DJ, Han S, Tainer JA, Yannone SM. Identification of a coiled coil in Werner syndrome protein that facilitates multimerization and promotes exonuclease processivity Journal of Biological Chemistry. 285: 25699-25707. PMID 20516064 DOI: 10.1074/jbc.M110.124941  1
2010 Tubbs JL, Tainer JA. Alkyltransferase-like proteins: molecular switches between DNA repair pathways. Cellular and Molecular Life Sciences : Cmls. 67: 3749-62. PMID 20502938 DOI: 10.1007/s00018-010-0405-8  1
2010 Tainer JA, McCammon JA, Ivanov I. Recognition of the ring-opened state of proliferating cell nuclear antigen by replication factor C promotes eukaryotic clamp-loading Journal of the American Chemical Society. 132: 7372-7378. PMID 20455582 DOI: 10.1021/ja100365x  1
2010 Perry JJP, Cotner-Gohara E, Ellenberger T, Tainer JA. Structural dynamics in DNA damage signaling and repair Current Opinion in Structural Biology. 20: 283-294. PMID 20439160 DOI: 10.1016/j.sbi.2010.03.012  1
2010 Tomlinson CG, Atack JM, Chapados B, Tainer JA, Grasby JA. Substrate recognition and catalysis by flap endonucleases and related enzymes Biochemical Society Transactions. 38: 433-437. PMID 20298197 DOI: 10.1042/BST0380433  1
2010 Aramini JM, Tubbs JL, Kanugula S, Rossi P, Ertekin A, Maglaqui M, Hamilton K, Ciccosanti CT, Jiang M, Xiao R, Soong TT, Rost B, Acton TB, Everett JK, Pegg AE, ... Tainer JA, et al. Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein. The Journal of Biological Chemistry. 285: 13736-41. PMID 20212037 DOI: 10.1074/jbc.M109.093591  1
2010 Pretto DI, Tsutakawa S, Brosey CA, Castillo A, Chagot ME, Smith JA, Tainer JA, Chazin WJ. Structural dynamics and single-stranded DNA binding activity of the three N-terminal domains of the large subunit of replication protein A from small angle X-ray scattering. Biochemistry. 49: 2880-9. PMID 20184389 DOI: 10.1021/bi9019934  1
2010 Das D, Moiani D, Axelrod HL, Miller MD, McMullan D, Jin KK, Abdubek P, Astakhova T, Burra P, Carlton D, Chiu HJ, Clayton T, Deller MC, Duan L, Ernst D, ... ... Tainer JA, et al. Crystal structure of the first eubacterial Mre11 nuclease reveals novel features that may discriminate substrates during DNA repair. Journal of Molecular Biology. 397: 647-63. PMID 20122942 DOI: 10.1016/j.jmb.2010.01.049  1
2010 Rambo RP, Tainer JA. Improving small-angle X-ray scattering data for structural analyses of the RNA world. Rna (New York, N.Y.). 16: 638-46. PMID 20106957 DOI: 10.1261/rna.1946310  1
2010 Rambo RP, Tainer JA. Bridging the solution divide: comprehensive structural analyses of dynamic RNA, DNA, and protein assemblies by small-angle X-ray scattering. Current Opinion in Structural Biology. 20: 128-37. PMID 20097063 DOI: 10.1016/j.sbi.2009.12.015  1
2010 Williams JS, Williams RS, Dovey CL, Guenther G, Tainer JA, Russell P. gammaH2A binds Brc1 to maintain genome integrity during S-phase. The Embo Journal. 29: 1136-48. PMID 20094029 DOI: 10.1038/emboj.2009.413  1
2010 Fang Q, Kanugula S, Tubbs JL, Tainer JA, Pegg AE. Repair of O4-alkylthymine by O6-alkylguanine-DNA alkyltransferases. The Journal of Biological Chemistry. 285: 8185-95. PMID 20026607 DOI: 10.1074/jbc.M109.045518  1
2010 Perry JJ, Shin DS, Getzoff ED, Tainer JA. The structural biochemistry of the superoxide dismutases. Biochimica Et Biophysica Acta. 1804: 245-62. PMID 19914407 DOI: 10.1016/j.bbapap.2009.11.004  1
2010 Hammel M, Yu Y, Mahaney BL, Cai B, Ye R, Phipps BM, Rambo RP, Hura GL, Pelikan M, So S, Abolfath RM, Chen DJ, Lees-Miller SP, Tainer JA. Ku and DNA-dependent protein kinase dynamic conformations and assembly regulate DNA binding and the initial non-homologous end joining complex. The Journal of Biological Chemistry. 285: 1414-23. PMID 19893054 DOI: 10.1074/jbc.M109.065615  1
2009 Aleshin AE, Gramatikova S, Hura GL, Bobkov A, Strongin AY, Stec B, Tainer JA, Liddington RC, Smith JW. Crystal and solution structures of a prokaryotic M16B peptidase: an open and shut case. Structure (London, England : 1993). 17: 1465-75. PMID 19913481 DOI: 10.1016/j.str.2009.09.009  1
2009 Williams RS, Dodson GE, Limbo O, Yamada Y, Williams JS, Guenther G, Classen S, Glover JN, Iwasaki H, Russell P, Tainer JA. Nbs1 flexibly tethers Ctp1 and Mre11-Rad50 to coordinate DNA double-strand break processing and repair. Cell. 139: 87-99. PMID 19804755 DOI: 10.1016/j.cell.2009.07.033  1
2009 Bernstein NK, Hammel M, Mani RS, Weinfeld M, Pelikan M, Tainer JA, Glover JN. Mechanism of DNA substrate recognition by the mammalian DNA repair enzyme, Polynucleotide Kinase. Nucleic Acids Research. 37: 6161-73. PMID 19671525 DOI: 10.1093/nar/gkp597  1
2009 Hura GL, Menon AL, Hammel M, Rambo RP, Poole FL, Tsutakawa SE, Jenney FE, Classen S, Frankel KA, Hopkins RC, Yang SJ, Scott JW, Dillard BD, Adams MW, Tainer JA. Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS). Nature Methods. 6: 606-12. PMID 19620974 DOI: 10.1038/nmeth.1353  1
2009 Tubbs JL, Latypov V, Kanugula S, Butt A, Melikishvili M, Kraehenbuehl R, Fleck O, Marriott A, Watson AJ, Verbeek B, McGown G, Thorncroft M, Santibanez-Koref MF, Millington C, Arvai AS, ... ... Tainer JA, et al. Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature. 459: 808-13. PMID 19516334 DOI: 10.1038/nature08076  1
2009 Perry JJ, Harris RM, Moiani D, Olson AJ, Tainer JA. p38alpha MAP kinase C-terminal domain binding pocket characterized by crystallographic and computational analyses. Journal of Molecular Biology. 391: 1-11. PMID 19501598 DOI: 10.1016/j.jmb.2009.06.005  1
2009 Perry JJP, Hitomi K, Tainer JA. Flexibility Promotes Fidelity Structure. 17: 633-634. PMID 19446518 DOI: 10.1016/j.str.2009.04.003  1
2009 Prudden J, Perry JJ, Arvai AS, Tainer JA, Boddy MN. Molecular mimicry of SUMO promotes DNA repair. Nature Structural & Molecular Biology. 16: 509-16. PMID 19363481 DOI: 10.1038/nsmb.1582  1
2009 Hitomi K, DiTacchio L, Arvai AS, Yamamoto J, Kim ST, Todo T, Tainer JA, Iwai S, Panda S, Getzoff ED. Functional motifs in the (6-4) photolyase crystal structure make a comparative framework for DNA repair photolyases and clock cryptochromes. Proceedings of the National Academy of Sciences of the United States of America. 106: 6962-7. PMID 19359474 DOI: 10.1073/pnas.0809180106  1
2009 Perry JJ, Hearn AS, Cabelli DE, Nick HS, Tainer JA, Silverman DN. Contribution of human manganese superoxide dismutase tyrosine 34 to structure and catalysis. Biochemistry. 48: 3417-24. PMID 19265433 DOI: 10.1021/bi8023288  1
2009 Min X, Akella R, He H, Humphreys JM, Tsutakawa SE, Lee SJ, Tainer JA, Cobb MH, Goldsmith EJ. The structure of the MAP2K MEK6 reveals an autoinhibitory dimer. Structure (London, England : 1993). 17: 96-104. PMID 19141286 DOI: 10.1016/j.str.2008.11.007  1
2009 Dalhus B, Arvai AS, Rosnes I, Olsen ØE, Backe PH, Alseth I, Gao H, Cao W, Tainer JA, Bjørås M. Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair. Nature Structural & Molecular Biology. 16: 138-43. PMID 19136958 DOI: 10.1038/nsmb.1538  1
2009 Shin DS, Didonato M, Barondeau DP, Hura GL, Hitomi C, Berglund JA, Getzoff ED, Cary SC, Tainer JA. Superoxide dismutase from the eukaryotic thermophile Alvinella pompejana: structures, stability, mechanism, and insights into amyotrophic lateral sclerosis. Journal of Molecular Biology. 385: 1534-55. PMID 19063897 DOI: 10.1016/j.jmb.2008.11.031  1
2009 Edwards RA, Lee MS, Tsutakawa SE, Williams RS, Nazeer I, Kleiman FE, Tainer JA, Glover JN. The BARD1 C-terminal domain structure and interactions with polyadenylation factor CstF-50 (Biochemistry (2008), 47, 44 (11446-11456)) Biochemistry. 48: 4008. DOI: 10.1021/bi900462x  1
2008 Williams RS, Williams GJ, Tainer JA. A Charged Performance by gp17 in Viral Packaging Cell. 135: 1169-1171. PMID 19109888 DOI: 10.1016/j.cell.2008.12.011  1
2008 Acharya SN, Many AM, Schroeder AP, Kennedy FM, Savytskyy OP, Grubb JT, Vincent JA, Friedle EA, Celerin M, Maillet DS, Palmerini HJ, Greischar MA, Moncalian G, Williams RS, Tainer JA, et al. Coprinus cinereus rad50 mutants reveal an essential structural role for Rad50 in axial element and synaptonemal complex formation, homolog pairing and meiotic recombination. Genetics. 180: 1889-907. PMID 18940790 DOI: 10.1534/genetics.108.092775  1
2008 Williams RS, Moncalian G, Williams JS, Yamada Y, Limbo O, Shin DS, Groocock LM, Cahill D, Hitomi C, Guenther G, Moiani D, Carney JP, Russell P, Tainer JA. Mre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair. Cell. 135: 97-109. PMID 18854158 DOI: 10.1016/j.cell.2008.08.017  1
2008 Garcin ED, Arvai AS, Rosenfeld RJ, Kroeger MD, Crane BR, Andersson G, Andrews G, Hamley PJ, Mallinder PR, Nicholls DJ, St-Gallay SA, Tinker AC, Gensmantel NP, Mete A, Cheshire DR, ... ... Tainer JA, et al. Anchored plasticity opens doors for selective inhibitor design in nitric oxide synthase. Nature Chemical Biology. 4: 700-7. PMID 18849972 DOI: 10.1038/nchembio.115  1
2008 Edwards RA, Lee MS, Tsutakawa SE, Williams RS, Nazeer I, Kleiman FE, Tainer JA, Glover JN. The BARD1 C-terminal domain structure and interactions with polyadenylation factor CstF-50. Biochemistry. 47: 11446-56. PMID 18842000 DOI: 10.1021/bi801115g  1
2008 Fang Q, Noronha AM, Murphy SP, Wilds CJ, Tubbs JL, Tainer JA, Chowdhury G, Guengerich FP, Pegg AE. Repair of O6-G-alkyl-O6-G interstrand cross-links by human O6-alkylguanine-DNA alkyltransferase. Biochemistry. 47: 10892-903. PMID 18803403 DOI: 10.1021/bi8008664  1
2008 Syson K, Tomlinson C, Chapados BR, Sayers JR, Tainer JA, Williams NH, Grasby JA. Three metal ions participate in the reaction catalyzed by T5 flap endonuclease. The Journal of Biological Chemistry. 283: 28741-6. PMID 18697748 DOI: 10.1074/jbc.M801264200  1
2008 Pebernard S, Perry JJ, Tainer JA, Boddy MN. Nse1 RING-like domain supports functions of the Smc5-Smc6 holocomplex in genome stability. Molecular Biology of the Cell. 19: 4099-109. PMID 18667531 DOI: 10.1091/mbc.E08-02-0226  1
2008 Chrencik JE, Brooun A, Zhang H, Mathews II, Hura GL, Foster SA, Perry JJP, Streiff M, Ramage P, Widmer H, Bokoch GM, Tainer JA, Weckbecker G, Kuhn P. Structural Basis of Guanine Nucleotide Exchange Mediated by the T-Cell Essential Vav1 Journal of Molecular Biology. 380: 828-843. PMID 18589439 DOI: 10.1016/j.jmb.2008.05.024  1
2008 Fan L, Fuss JO, Cheng QJ, Arvai AS, Hammel M, Roberts VA, Cooper PK, Tainer JA. XPD helicase structures and activities: insights into the cancer and aging phenotypes from XPD mutations. Cell. 133: 789-800. PMID 18510924 DOI: 10.1016/j.cell.2008.04.030  1
2008 Garcin ED, Hosfield DJ, Desai SA, Haas BJ, Björas M, Cunningham RP, Tainer JA. DNA apurinic-apyrimidinic site binding and excision by endonuclease IV. Nature Structural & Molecular Biology. 15: 515-22. PMID 18408731 DOI: 10.1038/nsmb.1414  1
2008 Perry JJ, Tainer JA, Boddy MN. A SIM-ultaneous role for SUMO and ubiquitin. Trends in Biochemical Sciences. 33: 201-8. PMID 18403209 DOI: 10.1016/j.tibs.2008.02.001  1
2007 Putnam CD, Hammel M, Hura GL, Tainer JA. X-ray solution scattering (SAXS) combined with crystallography and computation: defining accurate macromolecular structures, conformations and assemblies in solution. Quarterly Reviews of Biophysics. 40: 191-285. PMID 18078545 DOI: 10.1017/S0033583507004635  1
2007 Roberts BR, Tainer JA, Getzoff ED, Malencik DA, Anderson SR, Bomben VC, Meyers KR, Karplus PA, Beckman JS. Structural characterization of zinc-deficient human superoxide dismutase and implications for ALS. Journal of Molecular Biology. 373: 877-90. PMID 17888947 DOI: 10.1016/j.jmb.2007.07.043  1
2007 Prudden J, Pebernard S, Raffa G, Slavin DA, Perry JJ, Tainer JA, McGowan CH, Boddy MN. SUMO-targeted ubiquitin ligases in genome stability. The Embo Journal. 26: 4089-101. PMID 17762865 DOI: 10.1038/sj.emboj.7601838  1
2007 Williams RS, Williams JS, Tainer JA. Mre11-Rad50-Nbs1 is a keystone complex connecting DNA repair machinery, double-strand break signaling, and the chromatin template Biochemistry and Cell Biology. 85: 509-520. PMID 17713585 DOI: 10.1139/O07-069  1
2007 Williams R, Sengerová B, Osborne S, Syson K, Ault S, Kilgour A, Chapados BR, Tainer JA, Sayers JR, Grasby JA. Comparison of the catalytic parameters and reaction specificities of a phage and an archaeal flap endonuclease. Journal of Molecular Biology. 371: 34-48. PMID 17559871 DOI: 10.1016/j.jmb.2007.04.063  1
2007 Tubbs JL, Pegg AE, Tainer JA. DNA binding, nucleotide flipping, and the helix-turn-helix motif in base repair by O6-alkylguanine-DNA alkyltransferase and its implications for cancer chemotherapy. Dna Repair. 6: 1100-15. PMID 17485252 DOI: 10.1016/j.dnarep.2007.03.011  1
2007 Williams RS, Tainer JA. Learning Our ABCs: Rad50 Directs MRN Repair Functions via Adenylate Kinase Activity from the Conserved ATP Binding Cassette Molecular Cell. 25: 789-791. PMID 17386254 DOI: 10.1016/j.molcel.2007.03.004  1
2007 Barondeau DP, Kassmann CJ, Tainer JA, Getzoff ED. The case of the missing ring: radical cleavage of a carbon-carbon bond and implications for GFP chromophore biosynthesis. Journal of the American Chemical Society. 129: 3118-26. PMID 17326633 DOI: 10.1021/ja063983u  1
2007 Vijayakumar S, Chapados BR, Schmidt KH, Kolodner RD, Tainer JA, Tomkinson AE. The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase Nucleic Acids Research. 35: 1624-1637. PMID 17308348 DOI: 10.1093/nar/gkm006  1
2007 Yamagata A, Tainer JA. Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism. The Embo Journal. 26: 878-90. PMID 17255937 DOI: 10.1038/sj.emboj.7601544  1
2007 Ivanov I, Tainer JA, McCammon JA. Unraveling the three-metal-ion catalytic mechanism of the DNA repair endonuclease IV Proceedings of the National Academy of Sciences of the United States of America. 104: 1465-1470. PMID 17242363 DOI: 10.1073/pnas.0603468104  1
2007 Hitomi K, Iwai S, Tainer JA. The intricate structural chemistry of base excision repair machinery: Implications for DNA damage recognition, removal, and repair Dna Repair. 6: 410-428. PMID 17208522 DOI: 10.1016/j.dnarep.2006.10.004  1
2007 Tsutakawa SE, Hura GL, Frankel KA, Cooper PK, Tainer JA. Structural analysis of flexible proteins in solution by small angle X-ray scattering combined with crystallography. Journal of Structural Biology. 158: 214-23. PMID 17182256 DOI: 10.1016/j.jsb.2006.09.008  1
2007 Perry JJP, Fan L, Tainer JA. Developing master keys to brain pathology, cancer and aging from the structural biology of proteins controlling reactive oxygen species and DNA repair Neuroscience. 145: 1280-1299. PMID 17174478 DOI: 10.1016/j.neuroscience.2006.10.045  1
2006 Ivanov I, Chapados BR, McCammon JA, Tainer JA. Proliferating cell nuclear antigen loaded onto double-stranded DNA: dynamics, minor groove interactions and functional implications. Nucleic Acids Research. 34: 6023-33. PMID 17071716 DOI: 10.1093/nar/gkl744  1
2006 Pascal JM, Tsodikov OV, Hura GL, Song W, Cotner EA, Classen S, Tomkinson AE, Tainer JA, Ellenberger T. A flexible interface between DNA ligase and PCNA supports conformational switching and efficient ligation of DNA. Molecular Cell. 24: 279-91. PMID 17052461 DOI: 10.1016/j.molcel.2006.08.015  1
2006 Craig L, Volkmann N, Arvai AS, Pique ME, Yeager M, Egelman EH, Tainer JA. Type IV pilus structure by cryo-electron microscopy and crystallography: implications for pilus assembly and functions. Molecular Cell. 23: 651-62. PMID 16949362 DOI: 10.1016/j.molcel.2006.07.004  1
2006 Sundheim O, Vågbø CB, Bjørås M, Sousa MML, Talstad V, Aas PA, Drabløs F, Krokan HE, Tainer JA, Slupphaug G. Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage Embo Journal. 25: 3389-3397. PMID 16858410 DOI: 10.1038/sj.emboj.7601219  1
2006 Perry JJ, Yannone SM, Holden LG, Hitomi C, Asaithamby A, Han S, Cooper PK, Chen DJ, Tainer JA. WRN exonuclease structure and molecular mechanism imply an editing role in DNA end processing. Nature Structural & Molecular Biology. 13: 414-22. PMID 16622405 DOI: 10.1038/nsmb1088  1
2006 Fan L, Arvai AS, Cooper PK, Iwai S, Hanaoka F, Tainer JA. Conserved XPB Core Structure and Motifs for DNA Unwinding: Implications for Pathway Selection of Transcription or Excision Repair Molecular Cell. 22: 27-37. PMID 16600867 DOI: 10.1016/j.molcel.2006.02.017  1
2006 Barondeau DP, Kassmann CJ, Tainer JA, Getzoff ED. Understanding GFP posttranslational chemistry: structures of designed variants that achieve backbone fragmentation, hydrolysis, and decarboxylation. Journal of the American Chemical Society. 128: 4685-93. PMID 16594705 DOI: 10.1021/ja056635l  1
2006 Fan L, Kim S, Farr CL, Schaefer KT, Randolph KM, Tainer JA, Kaguni LS. A novel processive mechanism for DNA synthesis revealed by structure, modeling and mutagenesis of the accessory subunit of human mitochondrial DNA polymerase. Journal of Molecular Biology. 358: 1229-43. PMID 16574152 DOI: 10.1016/j.jmb.2006.02.073  1
2006 Doi Y, Katafuchi A, Fujiwara Y, Hitomi K, Tainer JA, Ide H, Iwai S. Synthesis and characterization of oligonucleotides containing 2′-fluorinated thymidine glycol as inhibitors of the endonuclease III reaction Nucleic Acids Research. 34: 1540-1551. PMID 16547199 DOI: 10.1093/nar/gkl061  1
2006 Barondeau DP, Tainer JA, Getzoff ED. Structural evidence for an enolate intermediate in GFP fluorophore biosynthesis. Journal of the American Chemical Society. 128: 3166-8. PMID 16522096 DOI: 10.1021/ja0552693  1
2006 Ren X, Tu C, Bhatt D, Perry JJP, Tainer JA, Cabelli DE, Silverman DN. Kinetic and structural characterization of human manganese superoxide dismutase containing 3-fluorotyrosines Journal of Molecular Structure. 790: 168-173. DOI: 10.1016/j.molstruc.2005.10.054  1
2005 Doi Y, Hitomi K, Tainer JA, Iwai S. Synthesis of oligonucleotides containing 2'-fluorinated thymidine glycol as mechanism-based inhibitors of endonuclease III Nucleic Acids Symposium Series (2004). 195-196. PMID 17150700  1
2005 Wood TI, Barondeau DP, Hitomi C, Kassmann CJ, Tainer JA, Getzoff ED. Defining the role of arginine 96 in green fluorescent protein fluorophore biosynthesis. Biochemistry. 44: 16211-20. PMID 16331981 DOI: 10.1021/bi051388j  1
2005 Ayala P, Wilbur JS, Wetzler LM, Tainer JA, Snyder A, So M. The pilus and porin of Neisseria gonorrhoeae cooperatively induce Ca(2+) transients in infected epithelial cells. Cellular Microbiology. 7: 1736-48. PMID 16309460 DOI: 10.1111/j.1462-5822.2005.00586.x  1
2005 Sarker AH, Tsutakawa SE, Kostek S, Ng C, Shin DS, Peris M, Campeau E, Tainer JA, Nogales E, Cooper PK. Recognition of RNA polymerase II and transcription bubbles by XPG, CSB, and TFIIH: insights for transcription-coupled repair and Cockayne Syndrome. Molecular Cell. 20: 187-98. PMID 16246722 DOI: 10.1016/j.molcel.2005.09.022  1
2005 Putnam CD, Tainer JA. Protein mimicry of DNA and pathway regulation. Dna Repair. 4: 1410-20. PMID 16226493 DOI: 10.1016/j.dnarep.2005.08.007  1
2005 Williams RS, Tainer JA. A nanomachine for making ends meet: MRN is a flexing scaffold for the repair of DNA double-strand breaks Molecular Cell. 19: 724-726. PMID 16168369 DOI: 10.1016/j.molcel.2005.07.006  1
2005 Ayala I, Perry JJ, Szczepanski J, Tainer JA, Vala MT, Nick HS, Silverman DN. Hydrogen bonding in human manganese superoxide dismutase containing 3-fluorotyrosine. Biophysical Journal. 89: 4171-9. PMID 16150974 DOI: 10.1529/biophysj.105.060616  1
2005 Simeoni F, Arvai A, Bello P, Gondeau C, Hopfner KP, Neyroz P, Heitz F, Tainer J, Divita G. Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2. Biochemistry. 44: 11997-2008. PMID 16142897 DOI: 10.1021/bi050427o  1
2005 Tubbs JL, Tainer JA, Getzoff ED. Crystallographic structures of Discosoma red fluorescent protein with immature and mature chromophores: linking peptide bond trans-cis isomerization and acylimine formation in chromophore maturation. Biochemistry. 44: 9833-40. PMID 16026155 DOI: 10.1021/bi0472907  1
2005 Huffman JL, Sundheim O, Tainer JA. DNA base damage recognition and removal: new twists and grooves. Mutation Research. 577: 55-76. PMID 15941573 DOI: 10.1016/j.mrfmmm.2005.03.012  1
2005 Crowther LJ, Yamagata A, Craig L, Tainer JA, Donnenberg MS. The ATPase activity of BfpD is greatly enhanced by zinc and allosteric interactions with other Bfp proteins. The Journal of Biological Chemistry. 280: 24839-48. PMID 15866879 DOI: 10.1074/jbc.M500253200  1
2005 Barondeau DP, Kassmann CJ, Tainer JA, Getzoff ED. Understanding GFP chromophore biosynthesis: controlling backbone cyclization and modifying post-translational chemistry. Biochemistry. 44: 1960-70. PMID 15697221 DOI: 10.1021/bi0479205  1
2004 Manuel RC, Hitomi K, Arvai AS, House PG, Kurtz AJ, Dodson ML, McCullough AK, Tainer JA, Lloyd RS. Reaction intermediates in the catalytic mechanism of Escherichia coli MutY DNA glycosylase. The Journal of Biological Chemistry. 279: 46930-9. PMID 15326180 DOI: 10.1074/jbc.M403944200  1
2004 Shin DS, Chahwan C, Huffman JL, Tainer JA. Structure and function of the double-strand break repair machinery. Dna Repair. 3: 863-73. PMID 15279771 DOI: 10.1016/j.dnarep.2004.03.022  1
2004 Daniels DS, Woo TT, Luu KX, Noll DM, Clarke ND, Pegg AE, Tainer JA. DNA binding and nucleotide flipping by the human DNA repair protein AGT. Nature Structural & Molecular Biology. 11: 714-20. PMID 15221026 DOI: 10.1038/nsmb791  1
2004 Barondeau DP, Kassmann CJ, Bruns CK, Tainer JA, Getzoff ED. Nickel superoxide dismutase structure and mechanism. Biochemistry. 43: 8038-47. PMID 15209499 DOI: 10.1021/bi0496081  1
2004 Garcin ED, Bruns CM, Lloyd SJ, Hosfield DJ, Tiso M, Gachhui R, Stuehr DJ, Tainer JA, Getzoff ED. Structural basis for isozyme-specific regulation of electron transfer in nitric-oxide synthase. The Journal of Biological Chemistry. 279: 37918-27. PMID 15208315 DOI: 10.1074/jbc.M406204200  1
2004 Greenleaf WB, Perry JJ, Hearn AS, Cabelli DE, Lepock JR, Stroupe ME, Tainer JA, Nick HS, Silverman DN. Role of hydrogen bonding in the active site of human manganese superoxide dismutase. Biochemistry. 43: 7038-45. PMID 15170341 DOI: 10.1021/bi049888k  1
2004 de Jager M, Trujillo KM, Sung P, Hopfner KP, Carney JP, Tainer JA, Connelly JC, Leach DR, Kanaar R, Wyman C. Differential arrangements of conserved building blocks among homologs of the Rad50/Mre11 DNA repair protein complex. Journal of Molecular Biology. 339: 937-49. PMID 15165861 DOI: 10.1016/j.jmb.2004.04.014  1
2004 Connolly S, Aberg A, Arvai A, Beaton HG, Cheshire DR, Cook AR, Cooper S, Cox D, Hamley P, Mallinder P, Millichip I, Nicholls DJ, Rosenfeld RJ, St-Gallay SA, Tainer J, et al. 2-aminopyridines as highly selective inducible nitric oxide synthase inhibitors. Differential binding modes dependent on nitrogen substitution. Journal of Medicinal Chemistry. 47: 3320-3. PMID 15163211 DOI: 10.1021/jm031035n  1
2004 Craig L, Pique ME, Tainer JA. Type IV pilus structure and bacterial pathogenicity. Nature Reviews. Microbiology. 2: 363-78. PMID 15100690 DOI: 10.1038/nrmicro885  1
2004 Arthur LM, Gustausson K, Hopfner KP, Carson CT, Stracker TH, Karcher A, Felton D, Weitzman MD, Tainer J, Carney JP. Structural and functional analysis of Mre11-3. Nucleic Acids Research. 32: 1886-93. PMID 15047855 DOI: 10.1093/nar/gkh343  1
2004 Qiu J, Liu R, Chapados BR, Sherman M, Tainer JA, Shen B. Interaction interface of human flap endonuclease-1 with its DNA substrates. The Journal of Biological Chemistry. 279: 24394-402. PMID 15037610 DOI: 10.1074/jbc.M401464200  1
2004 Chapados BR, Hosfield DJ, Han S, Qiu J, Yelent B, Shen B, Tainer JA. Structural basis for FEN-1 substrate specificity and PCNA-mediated activation in DNA replication and repair. Cell. 116: 39-50. PMID 14718165 DOI: 10.1016/S0092-8674(03)01036-5  1
2004 Moncalian G, Lengsfeld B, Bhaskara V, Hopfner KP, Karcher A, Alden E, Tainer JA, Paull TT. The rad50 signature motif: essential to ATP binding and biological function. Journal of Molecular Biology. 335: 937-51. PMID 14698290 DOI: 10.1016/j.jmb.2003.11.026  1
2004 Hearn AS, Fan L, Lepock JR, Luba JP, Greenleaf WB, Cabelli DE, Tainer JA, Nick HS, Silverman DN. Amino acid substitution at the dimeric interface of human manganese superoxide dismutase. The Journal of Biological Chemistry. 279: 5861-6. PMID 14638684 DOI: 10.1074/jbc.M311310200  1
2003 Barondeau DP, Putnam CD, Kassmann CJ, Tainer JA, Getzoff ED. Mechanism and energetics of green fluorescent protein chromophore synthesis revealed by trapped intermediate structures. Proceedings of the National Academy of Sciences of the United States of America. 100: 12111-6. PMID 14523232 DOI: 10.1073/pnas.2133463100  1
2003 DiDonato M, Craig L, Huff ME, Thayer MM, Cardoso RM, Kassmann CJ, Lo TP, Bruns CK, Powers ET, Kelly JW, Getzoff ED, Tainer JA. ALS mutants of human superoxide dismutase form fibrous aggregates via framework destabilization. Journal of Molecular Biology. 332: 601-15. PMID 12963370 DOI: 10.1016/S0022-2836(03)00889-1  1
2003 Shin DS, Pellegrini L, Daniels DS, Yelent B, Craig L, Bates D, Yu DS, Shivji MK, Hitomi C, Arvai AS, Volkmann N, Tsuruta H, Blundell TL, Venkitaraman AR, Tainer JA. Full-length archaeal Rad51 structure and mutants: mechanisms for RAD51 assembly and control by BRCA2. The Embo Journal. 22: 4566-76. PMID 12941707 DOI: 10.1093/emboj/cdg429  1
2003 Huffman JL, Li H, White RH, Tainer JA. Structural basis for recognition and catalysis by the bifunctional dCTP deaminase and dUTPase from Methanococcus jannaschii. Journal of Molecular Biology. 331: 885-96. PMID 12909016 DOI: 10.1016/S0022-2836(03)00789-7  1
2003 Craig L, Taylor RK, Pique ME, Adair BD, Arvai AS, Singh M, Lloyd SJ, Shin DS, Getzoff ED, Yeager M, Forest KT, Tainer JA. Type IV pilin structure and assembly: X-ray and EM analyses of Vibrio cholerae toxin-coregulated pilus and Pseudomonas aeruginosa PAK pilin. Molecular Cell. 11: 1139-50. PMID 12769840 DOI: 10.1016/S1097-2765(03)00170-9  1
2003 Wang M, Howell JM, Libbey JE, Tainer JA, Fujinami RS. Manganese superoxide dismutase induction during measles virus infection Journal of Medical Virology. 70: 470-474. PMID 12767013 DOI: 10.1002/jmv.10419  1
2003 Hearn AS, Stroupe ME, Cabelli DE, Ramilo CA, Luba JP, Tainer JA, Nick HS, Silverman DN. Catalytic and structural effects of amino acid substitution at histidine 30 in human manganese superoxide dismutase: insertion of valine C gamma into the substrate access channel. Biochemistry. 42: 2781-9. PMID 12627943 DOI: 10.1021/bi0266481  1
2003 Cardoso RM, Daniels DS, Bruns CM, Tainer JA. Characterization of the electrophile binding site and substrate binding mode of the 26-kDa glutathione S-transferase from Schistosoma japonicum. Proteins. 51: 137-46. PMID 12596270 DOI: 10.1002/prot.10345  1
2003 Aoyagi M, Arvai AS, Tainer JA, Getzoff ED. Structural basis for endothelial nitric oxide synthase binding to calmodulin. The Embo Journal. 22: 766-75. PMID 12574113 DOI: 10.1093/emboj/cdg078  1
2003 Brudler R, Hitomi K, Daiyasu H, Toh H, Kucho K, Ishiura M, Kanehisa M, Roberts VA, Todo T, Tainer JA, Getzoff ED. Identification of a new cryptochrome class. Structure, function, and evolution. Molecular Cell. 11: 59-67. PMID 12535521 DOI: 10.1016/S1097-2765(03)00008-X  1
2003 Abdalla AM, Bruns CM, Tainer JA, Mannervik B, Stenberg G. Design of a monomeric human glutathione transferase GSTP1, a structurally stable but catalytically inactive protein Protein Engineering. 15: 827-834. PMID 12468717  1
2002 Cardoso RM, Thayer MM, DiDonato M, Lo TP, Bruns CK, Getzoff ED, Tainer JA. Insights into Lou Gehrig's disease from the structure and instability of the A4V mutant of human Cu,Zn superoxide dismutase. Journal of Molecular Biology. 324: 247-56. PMID 12441104 DOI: 10.1016/S0022-2836(02)01090-2  1
2002 Rosenfeld RJ, Garcin ED, Panda K, Andersson G, Aberg A, Wallace AV, Morris GM, Olson AJ, Stuehr DJ, Tainer JA, Getzoff ED. Conformational changes in nitric oxide synthases induced by chlorzoxazone and nitroindazoles: crystallographic and computational analyses of inhibitor potency. Biochemistry. 41: 13915-25. PMID 12437348 DOI: 10.1021/bi026313j  1
2002 Hopfner KP, Craig L, Moncalian G, Zinkel RA, Usui T, Owen BA, Karcher A, Henderson B, Bodmer JL, McMurray CT, Carney JP, Petrini JH, Tainer JA. The Rad50 zinc-hook is a structure joining Mre11 complexes in DNA recombination and repair. Nature. 418: 562-6. PMID 12152085 DOI: 10.1038/nature00922  0.72
2002 Barondeau DP, Kassmann CJ, Tainer JA, Getzoff ED. Structural chemistry of a green fluorescent protein Zn biosensor. Journal of the American Chemical Society. 124: 3522-4. PMID 11929238 DOI: 10.1021/ja0176954  1
2002 Hopfner KP, Putnam CD, Tainer JA. DNA double-strand break repair from head to tail. Current Opinion in Structural Biology. 12: 115-22. PMID 11839498 DOI: 10.1016/S0959-440X(02)00297-X  1
2002 Mol CD, Arvai AS, Begley TJ, Cunningham RP, Tainer JA. Structure and activity of a thermostable thymine-DNA glycosylase: evidence for base twisting to remove mismatched normal DNA bases. Journal of Molecular Biology. 315: 373-84. PMID 11786018 DOI: 10.1006/jmbi.2001.5264  1
2002 Adak S, Bilwes AM, Panda K, Hosfield D, Aulak KS, McDonald JF, Tainer JA, Getzoff ED, Crane BR, Stuehr DJ. Cloning, expression, and characterization of a nitric oxide synthase protein from Deinococcus radiodurans. Proceedings of the National Academy of Sciences of the United States of America. 99: 107-12. PMID 11756668 DOI: 10.1073/pnas.012470099  1
2002 Castagnetto JM, Hennessy SW, Roberts VA, Getzoff ED, Tainer JA, Pique ME. MDB: the Metalloprotein Database and Browser at The Scripps Research Institute. Nucleic Acids Research. 30: 379-82. PMID 11752342  1
2001 Aoyagi M, Arvai AS, Ghosh S, Stuehr DJ, Tainer JA, Getzoff ED. Structures of tetrahydrobiopterin binding-site mutants of inducible nitric oxide synthase oxygenase dimer and implicated roles of Trp457. Biochemistry. 40: 12826-32. PMID 11669619 DOI: 10.1021/bi011183k  1
2001 Hearn AS, Stroupe ME, Cabelli DE, Lepock JR, Tainer JA, Nick HS, Silverman DN. Kinetic analysis of product inhibition in human manganese superoxide dismutase. Biochemistry. 40: 12051-8. PMID 11580280 DOI: 10.1021/bi011047f  1
2001 Hosfield DJ, Daniels DS, Mol CD, Putnam CD, Parikh SS, Tainer JA. DNA damage recognition and repair pathway coordination revealed by the structural biochemistry of DNA repair enzymes. Progress in Nucleic Acid Research and Molecular Biology. 68: 315-47. PMID 11554309  1
2001 Putnam CD, Clancy SB, Tsuruta H, Gonzalez S, Wetmur JG, Tainer JA. Structure and mechanism of the RuvB Holliday junction branch migration motor. Journal of Molecular Biology. 311: 297-310. PMID 11478862 DOI: 10.1006/jmbi.2001.4852  1
2001 Hopfner KP, Karcher A, Craig L, Woo TT, Carney JP, Tainer JA. Structural biochemistry and interaction architecture of the DNA double-strand break repair Mre11 nuclease and Rad50-ATPase. Cell. 105: 473-85. PMID 11371344 DOI: 10.1016/S0092-8674(01)00335-X  1
2001 Chapados BR, Chai Q, Hosfield DJ, Qiu J, Shen B, Tainer JA. Structural biochemistry of a type 2 RNase H: RNA primer recognition and removal during DNA replication. Journal of Molecular Biology. 307: 541-56. PMID 11254381 DOI: 10.1006/jmbi.2001.4494  1
2000 Hopfner KP, Parikh SS, Tainer JA. Envisioning the fourth dimension of the genetic code: the structural biology of macromolecular recognition and conformational switching in DNA repair. Cold Spring Harbor Symposia On Quantitative Biology. 65: 113-26. PMID 12760026  1
2000 Bourne Y, Watson MH, Arvai AS, Bernstein SL, Reed SI, Tainer JA. Crystal structure and mutational analysis of the Saccharomyces cerevisiae cell cycle regulatory protein Cks1: Implications for domain swapping, anion binding and protein interactions Structure. 8: 841-850. PMID 10997903 DOI: 10.1016/S0969-2126(00)00175-1  1
2000 Mol CD, Hosfield DJ, Tainer JA. Abasic site recognition by two apurinic/apyrimidinic endonuclease families in DNA base excision repair: the 3' ends justify the means. Mutation Research. 460: 211-29. PMID 10946230 DOI: 10.1016/S0921-8777(00)00028-8  1
2000 Parikh SS, Putnam CD, Tainer JA. Lessons learned from structural results on uracil-DNA glycosylase. Mutation Research. 460: 183-99. PMID 10946228 DOI: 10.1016/S0921-8777(00)00026-4  1
2000 Daniels DS, Tainer JA. Conserved structural motifs governing the stoichiometric repair of alkylated DNA by O(6)-alkylguanine-DNA alkyltransferase. Mutation Research. 460: 151-63. PMID 10946226 DOI: 10.1016/S0921-8777(00)00024-0  1
2000 Lévêque VJ, Stroupe ME, Lepock JR, Cabelli DE, Tainer JA, Nick HS, Silverman DN. Multiple replacements of glutamine 143 in human manganese superoxide dismutase: effects on structure, stability, and catalysis. Biochemistry. 39: 7131-7. PMID 10852710 DOI: 10.1021/bi9929958  1
2000 Parikh SS, Walcher G, Jones GD, Slupphaug G, Krokan HE, Blackburn GM, Tainer JA. Uracil-DNA glycosylase-DNA substrate and product structures: conformational strain promotes catalytic efficiency by coupled stereoelectronic effects. Proceedings of the National Academy of Sciences of the United States of America. 97: 5083-8. PMID 10805771 DOI: 10.1073/pnas.97.10.5083  1
2000 Crane BR, Arvai AS, Ghosh S, Getzoff ED, Stuehr DJ, Tainer JA. Structures of the N(omega)-hydroxy-L-arginine complex of inducible nitric oxide synthase oxygenase dimer with active and inactive pterins. Biochemistry. 39: 4608-21. PMID 10769116 DOI: 10.1021/bi992409a  1
2000 Daniels DS, Mol CD, Arvai AS, Kanugula S, Pegg AE, Tainer JA. Active and alkylated human AGT structures: a novel zinc site, inhibitor and extrahelical base binding. The Embo Journal. 19: 1719-30. PMID 10747039 DOI: 10.1093/emboj/19.7.1719  1
2000 Mol CD, Izumi T, Mitra S, Tainer JA. DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination [corrected]. Nature. 403: 451-6. PMID 10667800 DOI: 10.1038/35000249  0.96
2000 Putnam CD, Arvai AS, Bourne Y, Tainer JA. Active and inhibited human catalase structures: ligand and NADPH binding and catalytic mechanism. Journal of Molecular Biology. 296: 295-309. PMID 10656833 DOI: 10.1006/jmbi.1999.3458  1
2000 Putnam CD, Tainer JA. The food of sweet and bitter fancy. Nature Structural Biology. 7: 17-8. PMID 10625418 DOI: 10.1038/71211  1
1999 Crane BR, Rosenfeld RJ, Arvai AS, Ghosh DK, Ghosh S, Tainer JA, Stuehr DJ, Getzoff ED. N-terminal domain swapping and metal ion binding in nitric oxide synthase dimerization. The Embo Journal. 18: 6271-81. PMID 10562539 DOI: 10.1093/emboj/18.22.6271  1
1999 Ghosh DK, Crane BR, Ghosh S, Wolan D, Gachhui R, Crooks C, Presta A, Tainer JA, Getzoff ED, Stuehr DJ. Inducible nitric oxide synthase: role of the N-terminal beta-hairpin hook and pterin-binding segment in dimerization and tetrahydrobiopterin interaction. The Embo Journal. 18: 6260-70. PMID 10562538 DOI: 10.1093/emboj/18.22.6260  1
1999 Cabelli DE, Guan Y, Leveque V, Hearn AS, Tainer JA, Nick HS, Silverman DN. Role of tryptophan 161 in catalysis by human manganese superoxide dismutase. Biochemistry. 38: 11686-92. PMID 10512624 DOI: 10.1021/bi9909142  1
1999 Han S, Craig JA, Putnam CD, Carozzi NB, Tainer JA. Evolution and mechanism from structures of an ADP-ribosylating toxin and NAD complex. Nature Structural Biology. 6: 932-6. PMID 10504727 DOI: 10.1038/13300  1
1999 Ramilo CA, Leveque V, Guan Y, Lepock JR, Tainer JA, Nick HS, Silverman DN. Interrupting the hydrogen bond network at the active site of human manganese superoxide dismutase. The Journal of Biological Chemistry. 274: 27711-6. PMID 10488113 DOI: 10.1074/jbc.274.39.27711  1
1999 Adak S, Crooks C, Wang Q, Crane BR, Tainer JA, Getzoff ED, Stuehr DJ. Tryptophan 409 controls the activity of neuronal nitric-oxide synthase by regulating nitric oxide feedback inhibition. The Journal of Biological Chemistry. 274: 26907-11. PMID 10480900 DOI: 10.1074/jbc.274.38.26907  1
1999 Hosfield DJ, Guan Y, Haas BJ, Cunningham RP, Tainer JA. Structure of the DNA repair enzyme endonuclease IV and its DNA complex: double-nucleotide flipping at abasic sites and three-metal-ion catalysis. Cell. 98: 397-408. PMID 10458614 DOI: 10.1016/S0092-8674(00)81968-6  1
1999 Ghosh S, Wolan D, Adak S, Crane BR, Kwon NS, Tainer JA, Getzoff ED, Stuehr DJ. Mutational analysis of the tetrahydrobiopterin-binding site in inducible nitric-oxide synthase. The Journal of Biological Chemistry. 274: 24100-12. PMID 10446182 DOI: 10.1074/jbc.274.34.24100  1
1999 Pellequer JL, Chen Sw, Roberts VA, Tainer JA, Getzoff ED. Unraveling the effect of changes in conformation and compactness at the antibody V(L)-V(H) interface upon antigen binding. Journal of Molecular Recognition : Jmr. 12: 267-75. PMID 10440998 DOI: 10.1002/(SICI)1099-1352(199907/08)12:4<267::AID-JMR465>3.0.CO;2-9  1
1999 Mol CD, Parikh SS, Putnam CD, Lo TP, Tainer JA. DNA repair mechanisms for the recognition and removal of damaged DNA bases. Annual Review of Biophysics and Biomolecular Structure. 28: 101-28. PMID 10410797 DOI: 10.1146/annurev.biophys.28.1.101  1
1999 Shroyer MJ, Bennett SE, Putnam CD, Tainer JA, Mosbaugh DW. Mutation of an active site residue in Escherichia coli uracil-DNA glycosylase: effect on DNA binding, uracil inhibition and catalysis. Biochemistry. 38: 4834-45. PMID 10200172 DOI: 10.1021/bi982986j  1
1999 Putnam CD, Shroyer MJ, Lundquist AJ, Mol CD, Arvai AS, Mosbaugh DW, Tainer JA. Protein mimicry of DNA from crystal structures of the uracil-DNA glycosylase inhibitor protein and its complex with Escherichia coli uracil-DNA glycosylase. Journal of Molecular Biology. 287: 331-46. PMID 10080896 DOI: 10.1006/jmbi.1999.2605  1
1999 Forest KT, Dunham SA, Koomey M, Tainer JA. Crystallographic structure reveals phosphorylated pilin from Neisseria: phosphoserine sites modify type IV pilus surface chemistry and fibre morphology. Molecular Microbiology. 31: 743-52. PMID 10048019 DOI: 10.1046/j.1365-2958.1999.01184.x  1
1999 Parikh SS, Mol CD, Hosfield DJ, Tainer JA. Envisioning the molecular choreography of DNA base excision repair. Current Opinion in Structural Biology. 9: 37-47. PMID 10047578 DOI: 10.1016/S0959-440X(99)80006-2  1
1998 Guan Y, Manuel RC, Arvai AS, Parikh SS, Mol CD, Miller JH, Lloyd S, Tainer JA. MutY catalytic core, mutant and bound adenine structures define specificity for DNA repair enzyme superfamily. Nature Structural Biology. 5: 1058-64. PMID 9846876 DOI: 10.1038/4168  1
1998 Hosfield DJ, Mol CD, Shen B, Tainer JA. Structure of the DNA repair and replication endonuclease and exonuclease FEN-1: coupling DNA and PCNA binding to FEN-1 activity. Cell. 95: 135-46. PMID 9778254 DOI: 10.1016/S0092-8674(00)81789-4  1
1998 Hosfield DJ, Frank G, Weng Y, Tainer JA, Shen B. Newly discovered archaebacterial flap endonucleases show a structure-specific mechanism for DNA substrate binding and catalysis resembling human flap endonuclease-1. The Journal of Biological Chemistry. 273: 27154-61. PMID 9765234 DOI: 10.1074/jbc.273.42.27154  1
1998 Coombs GS, Bergstrom RC, Pellequer JL, Baker SI, Navre M, Smith MM, Tainer JA, Madison EL, Corey DR. Substrate specificity of prostate-specific antigen (PSA). Chemistry & Biology. 5: 475-88. PMID 9751643 DOI: 10.1016/S1074-5521(98)90004-7  1
1998 Schnecke V, Swanson CA, Getzoff ED, Tainer JA, Kuhn LA. Screening a peptidyl database for potential ligands to proteins with side-chain flexibility. Proteins. 33: 74-87. PMID 9741846 DOI: 10.1002/(SICI)1097-0134(19981001)33:1<74::AID-PROT7>3.0.CO;2-L  0.32
1998 Parikh SS, Mol CD, Slupphaug G, Bharati S, Krokan HE, Tainer JA. Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. The Embo Journal. 17: 5214-26. PMID 9724657 DOI: 10.1093/emboj/17.17.5214  1
1998 Hsieh Y, Guan Y, Tu C, Bratt PJ, Angerhofer A, Lepock JR, Hickey MJ, Tainer JA, Nick HS, Silverman DN. Probing the active site of human manganese superoxide dismutase: The role of glutamine 143 Biochemistry. 37: 4731-4739. PMID 9537988 DOI: 10.1021/bi972395d  1
1998 Guan Y, Hickey MJ, Borgstahl GEO, Hallewell RA, Lepock JR, O'Connor D, Hsieh Y, Nick HS, Silverman DN, Tainer JA. Crystal structure of Y34F mutant human mitochondrial manganese superoxide dismutase and the functional role of tyrosine 34 Biochemistry. 37: 4722-4730. PMID 9537987 DOI: 10.1021/bi972394l  1
1998 Crane BR, Arvai AS, Ghosh DK, Wu C, Getzoff ED, Stuehr DJ, Tainer JA. Structure of nitric oxide synthase oxygenase dimer with pterin and substrate. Science (New York, N.Y.). 279: 2121-6. PMID 9516116 DOI: 10.1126/science.279.5359.2121  1
1997 Zu JS, Deng HX, Lo TP, Mitsumoto H, Ahmed MS, Hung WY, Cai ZJ, Tainer JA, Siddique T. Exon 5 encoded domain is not required for the toxic function of mutant SOD1 but essential for the dismutase activity: identification and characterization of two new SOD1 mutations associated with familial amyotrophic lateral sclerosis. Neurogenetics. 1: 65-71. PMID 10735277 DOI: 10.1007/s100480050010  1
1997 Parikh SS, Mol CD, Tainer JA. Base excision repair enzyme family portrait: integrating the structure and chemistry of an entire DNA repair pathway. Structure (London, England : 1993). 5: 1543-50. PMID 9438868  1
1997 Gorman MA, Morera S, Rothwell DG, de La Fortelle E, Mol CD, Tainer JA, Hickson ID, Freemont PS. The crystal structure of the human DNA repair endonuclease HAP1 suggests the recognition of extra-helical deoxyribose at DNA abasic sites. The Embo Journal. 16: 6548-58. PMID 9351835 DOI: 10.1093/emboj/16.21.6548  0.96
1997 Crane BR, Arvai AS, Gachhui R, Wu C, Ghosh DK, Getzoff ED, Stuehr DJ, Tainer JA. The structure of nitric oxide synthase oxygenase domain and inhibitor complexes. Science (New York, N.Y.). 278: 425-31. PMID 9334294 DOI: 10.1126/science.278.5337.425  1
1997 Fisher CL, Cabelli DE, Hallewell RA, Beroza P, Lo TP, Getzoff ED, Tainer JA. Computational, pulse-radiolytic, and structural investigations of lysine-136 and its role in the electrostatic triad of human Cu,Zn superoxide dismutase. Proteins. 29: 103-12. PMID 9294870 DOI: 10.1002/(SICI)1097-0134(199709)29:1<103::AID-PROT8>3.0.CO;2-G  1
1997 Forest KT, Tainer JA. Type-4 pilus-structure: Outside to inside and top to bottom - A minireview Gene. 192: 165-169. PMID 9224887 DOI: 10.1016/S0378-1119(97)00008-5  1
1997 Roberts VA, Nachman RJ, Coast GM, Hariharan M, Chung JS, Holman GM, Williams H, Tainer JA. Consensus chemistry and beta-turn conformation of the active core of the insect kinin neuropeptide family. Chemistry & Biology. 4: 105-17. PMID 9190285 DOI: 10.1016/S1074-5521(97)90254-4  0.72
1997 Boissinot M, Karnas S, Lepock JR, Cabelli DE, Tainer JA, Getzoff ED, Hallewell RA. Function of the Greek key connection analysed using circular permutants of superoxide dismutase. The Embo Journal. 16: 2171-8. PMID 9171332 DOI: 10.1093/emboj/16.9.2171  1
1996 Bourne Y, Redford SM, Steinman HM, Lepock JR, Tainer JA, Getzoff ED. Novel dimeric interface and electrostatic recognition in bacterial Cu,Zn superoxide dismutase. Proceedings of the National Academy of Sciences of the United States of America. 93: 12774-9. PMID 8917495 DOI: 10.1073/pnas.93.23.12774  1
1996 Slupphaug G, Mol CD, Kavli B, Arvai AS, Krokan HE, Tainer JA. A nucleotide-flipping mechanism from the structure of human uracil-DNA glycosylase bound to DNA. Nature. 384: 87-92. PMID 8900285 DOI: 10.1038/384087a0  0.96
1996 Mol CD, Harris JM, McIntosh EM, Tainer JA. Human dUTP pyrophosphatase: uracil recognition by a beta hairpin and active sites formed by three separate subunits. Structure (London, England : 1993). 4: 1077-92. PMID 8805593 DOI: 10.1016/S0969-2126(96)00114-1  1
1996 Ogihara NL, Parge HE, Hart PJ, Weiss MS, Goto JJ, Crane BR, Tsang J, Slater K, Roe JA, Valentine JS, Eisenberg D, Tainer JA. Unusual trigonal-planar copper configuration revealed in the atomic structure of yeast copper-zinc superoxide dismutase. Biochemistry. 35: 2316-21. PMID 8652572 DOI: 10.1021/bi951930b  1
1996 Bourne Y, Watson MH, Hickey MJ, Holmes W, Rocque W, Reed SI, Tainer JA. Crystal structure and mutational analysis of the human CDK2 kinase complex with cell cycle-regulatory protein CksHs1. Cell. 84: 863-74. PMID 8601310 DOI: 10.1016/S0092-8674(00)81065-X  1
1996 Forest KT, Bernstein SL, Getzoff ED, So M, Tribbick G, Geysen HM, Deal CD, Tainer JA. Assembly and antigenicity of the Neisseria gonorrhoeae pilus mapped with antibodies. Infection and Immunity. 64: 644-52. PMID 8550220  1
1995 Kuhn LA, Swanson CA, Pique ME, Tainer JA, Getzoff ED. Atomic and residue hydrophilicity in the context of folded protein structures. Proteins. 23: 536-47. PMID 8749849 DOI: 10.1002/prot.340230408  1
1995 Mol CD, Kuo CF, Thayer MM, Cunningham RP, Tainer JA. Structure and function of the multifunctional DNA-repair enzyme exonuclease III. Nature. 374: 381-6. PMID 7885481 DOI: 10.1038/374381a0  1
1995 Tainer JA, Thayer MM, Cunningham RP. DNA repair proteins Current Opinion in Structural Biology. 5: 20-26. PMID 7773744 DOI: 10.1016/0959-440X(95)80005-L  1
1995 Mol CD, Arvai AS, Slupphaug G, Kavli B, Alseth I, Krokan HE, Tainer JA. Crystal structure and mutational analysis of human uracil-DNA glycosylase: structural basis for specificity and catalysis. Cell. 80: 869-78. PMID 7697717 DOI: 10.1016/0092-8674(95)90290-2  0.96
1995 Mol CD, Arvai AS, Sanderson RJ, Slupphaug G, Kavli B, Krokan HE, Mosbaugh DW, Tainer JA. Crystal structure of human uracil-DNA glycosylase in complex with a protein inhibitor: protein mimicry of DNA. Cell. 82: 701-8. PMID 7671300 DOI: 10.1016/0092-8674(95)90467-0  1
1995 Barzilay G, Mol CD, Robson CN, Walker LJ, Cunningham RP, Tainer JA, Hickson ID. Identification of critical active-site residues in the multifunctional human DNA repair enzyme HAP1. Nature Structural Biology. 2: 561-8. PMID 7664124 DOI: 10.1038/nsb0795-561  1
1995 Deng HX, Tainer JA, Mitsumoto H, Ohnishi A, He X, Hung WY, Zhao Y, Juneja T, Hentati A, Siddique T. Two novel SOD1 mutations in patients with familial amyotrophic lateral sclerosis. Human Molecular Genetics. 4: 1113-6. PMID 7655471 DOI: 10.1093/hmg/4.6.1113  1
1995 Själander A, Beckman G, Deng HX, Iqbal Z, Tainer JA, Siddique T. The D90A mutation results in a polymorphism of Cu,Zn superoxide dismutase that is prevalent in northern Sweden and Finland. Human Molecular Genetics. 4: 1105-8. PMID 7655469 DOI: 10.1093/hmg/4.6.1105  1
1995 Pond L, Kuhn LA, Teyton L, Schutze MP, Tainer JA, Jackson MR, Peterson PA. A role for acidic residues in Di-leucine motif-based targeting to the endocytic pathway Journal of Biological Chemistry. 270: 19989-19997. PMID 7650016 DOI: 10.1074/jbc.270.34.19989  1
1995 Phillips JP, Tainer JA, Getzoff ED, Boulianne GL, Kirby K, Hilliker AJ. Subunit-destabilizing mutations in Drosophila copper/zinc superoxide dismutase: neuropathology and a model of dimer dysequilibrium. Proceedings of the National Academy of Sciences of the United States of America. 92: 8574-8. PMID 7567977 DOI: 10.1073/pnas.92.19.8574  1
1995 Bourne Y, Arvai AS, Bernstein SL, Watson MH, Reed SI, Endicott JE, Noble ME, Johnson LN, Tainer JA. Crystal structure of the cell cycle-regulatory protein suc1 reveals a β- hinge conformational switch Proceedings of the National Academy of Sciences of the United States of America. 92: 10232-10236. PMID 7479758 DOI: 10.1073/pnas.92.22.10232  1
1995 Parge HE, Forest KT, Hickey MJ, Christensen DA, Getzoff ED, Tainer JA. Structure of the fibre-forming protein pilin at 2.6 A resolution. Nature. 378: 32-8. PMID 7477282 DOI: 10.1038/378032a0  1
1994 Kuo CF, Mol CD, Thayer MM, Cunningham RP, Tainer JA. Structure and function of the DNA repair enzyme exonuclease III from E. coli. Annals of the New York Academy of Sciences. 726: 223-34; discussion 2. PMID 8092679 DOI: 10.1111/j.1749-6632.1994.tb52820.x  1
1994 Cunningham RP, Ahern H, Xing D, Thayer MM, Tainer JA. Structure and function of Escherichia coli endonuclease III Annals of the New York Academy of Sciences. 726: 215-222. PMID 8092678 DOI: 10.1111/j.1749-6632.1994.tb52818.x  1
1994 Fisher CL, Cabelli DE, Tainer JA, Hallewell RA, Getzoff ED. The role of arginine 143 in the electrostatics and mechanism of Cu,Zn superoxide dismutase: computational and experimental evaluation by mutational analysis. Proteins. 19: 24-34. PMID 8066083 DOI: 10.1002/prot.340190105  1
1993 Boissinot M, Kuhn LA, Lee P, Fisher CL, Wang Y, Hallewell RA, Tainer JA. Rational Design and Expression of a Heparin-Targeted Human Superoxide Dismutase Biochemical and Biophysical Research Communications. 190: 250-256. PMID 8422249 DOI: 10.1006/bbrc.1993.1038  1
1993 Kuo CF, McRee DE, Cunningham RP, Tainer JA. Purification, crystallization and space group determination of DNA repair enzyme exonuclease III from E. coli Journal of Molecular Biology. 229: 239-242. PMID 8421304 DOI: 10.1006/jmbi.1993.1021  1
1993 Deng HX, Hentati A, Tainer JA, Iqbal Z, Cayabyab A, Hung WY, Getzoff ED, Hu P, Herzfeldt B, Roos RP, Warner C, Deng G, Soriano E, Smyth C, Parge HE, et al. Amyotrophic lateral sclerosis and structural defects in Cu,Zn superoxide dismutase Science. 261: 1047-1051. PMID 8351519  1
1993 Tainer JA, Cunningham RP. Molecular recognition in DNA-binding proteins and enzymes Current Opinion in Biotechnology. 4: 474-483. PMID 7763979 DOI: 10.1016/0958-1669(93)90015-O  1
1993 Tainer JA, Kuo CF, McRee DE, Fisher CL, O'Handle S, Cunningham RP. Crystallographic structures of metalloenzymes for dna repair: The [4fe-4s] enzyme endonuclease iii structure as a prototype for dna n-glycosylase and ap lyase Protein Engineering, Design and Selection. 6: 39. DOI: 10.1093/protein/6.Supplement.39  1
1993 Kuhn LA, Swanson CA, Siani MA, Tainer JA, Getzoff ED. Amino acid hydrophobicity in the context of folded proteins: A crystallographic hydration scale Protein Engineering, Design and Selection. 6: 129. DOI: 10.1093/protein/6.Supplement.129-a  1
1992 Kuo CF, McRee DE, Cunningham RP, Tainer JA. Crystallization and crystallographic characterization of the iron-sulfur-containing DNA-repair enzyme endonuclease III from Escherichia coli Journal of Molecular Biology. 227: 347-351. PMID 1522598 DOI: 10.1016/0022-2836(92)90703-M  1
1992 Kuhn LA, Siani MA, Pique ME, Fisher CL, Getzoff ED, Tainer JA. The interdependence of protein surface topography and bound water molecules revealed by surface accessibility and fractal density measures Journal of Molecular Biology. 228: 13-22. PMID 1447777 DOI: 10.1016/0022-2836(92)90487-5  1
1992 Kuo CF, McRee DE, Fisher CL, O'Handley SF, Cunningham RP, Tainer JA. Atomic structure of the DNA repair [4Fe-4S] enzyme endonuclease III Science. 258: 434-440. PMID 1411536 DOI: 10.1126/science.1411536  1
1992 Alexander H, Alexander S, Getzoff ED, Tainer JA, Geysen HM, Lerner RA. Altering the antigenicity of proteins Proceedings of the National Academy of Sciences of the United States of America. 89: 3352-3356. PMID 1373498  1
1992 Tainer JA, Roberts VA, Getzoff ED. Protein metal-binding sites Current Opinion in Biotechnology. 3: 378-387. PMID 1368439 DOI: 10.1016/0958-1669(92)90166-G  1
1991 Hallewell RA, Imlay KC, Lee P, Fong NM, Gallegos C, Getzoff ED, Tainer JA, Cabelli DE, Tekamp-Olson P, Mullenbach GT, Cousens LS. Thermostabilization of recombinant human and bovine CuZn superoxide dismutases by replacement of free cysteines Biochemical and Biophysical Research Communications. 181: 474-480. PMID 1958215 DOI: 10.1016/S0006-291X(05)81443-3  1
1991 Tainer JA, Deal CD, Geysen HM, Roberts VA, Getzoff ED. Defining antibody-antigen recognition: Towards engineered antibodies and epitopes International Reviews of Immunology. 7: 165-194. PMID 1721650 DOI: 10.3109/08830189109061773  1
1991 Alexander H, Alexander S, Heffron F, Fieser TM, Hay BN, Getzoff ED, Tainer JA, Lerner RA. Synthesis and characterization of a recombinant myohemerythrin protein encoded by a synthetic gene Gene. 99: 151-156. PMID 1708739 DOI: 10.1016/0378-1119(91)90121-Q  1
1991 Collawn JF, Kuhn LA, Sue Liu LF, Tainer JA, Trowbridge IS. Transplanted LDL and mannose-6-phosphate receptor internalization signals promote high-efficiency endocytosis of the transferrin receptor Embo Journal. 10: 3247-3253. PMID 1655415  1
1991 Fisher CL, Hallewell RA, Roberts VA, Tainer JA, Getzoff ED. Probing the structural basis for enzyme-substrate recognition in cu, zn superoxide dismutase Free Radical Research. 12: 287-296. PMID 1649096 DOI: 10.3109/10715769109145797  1
1991 Roberts VA, Fisher CL, Redford SM, Mcree DE, Parge HE, Getzoff ED, Tainer JA. Mechanism and atomic structure of superoxide dismutase Free Radical Research. 12: 269-278. PMID 1649094 DOI: 10.3109/10715769109145795  1
1991 Tainer JA, Roberts VA, Getzoff ED. Metal-binding sites in proteins Current Opinion in Biotechnology. 2: 582-591. PMID 1367679 DOI: 10.1016/0958-1669(91)90084-I  1
1990 Roberts VA, Iverson BL, Iverson SA, Benkovic SJ, Lerner RA, Getzoff ED, Tainer JA. Antibody remodeling: a general solution to the design of a metal-coordination site in an antibody binding pocket. Proceedings of the National Academy of Sciences of the United States of America. 87: 6654-8. PMID 2395868 DOI: 10.1073/pnas.87.17.6654  1
1990 McRee D, Redford SM, Getzoff ED, Lepock JR, Hallewell RA, Tainer JA. Changes in crystallographic structure and thermostability of a Cu,Zn superoxide dismutase mutant resulting from the removal of a buried cysteine Journal of Biological Chemistry. 265: 14234-14241. PMID 2387847  1
1990 Redford SM, McRee DE, Getzoff ED, Steinman HM, Tainer JA. Crystallographic characterization of a Cu,Zn superoxide dismutase from Photobacterium leiognathi Journal of Molecular Biology. 212: 449-451. PMID 2325128 DOI: 10.1016/0022-2836(90)90323-E  1
1990 Fisher CL, Tainer JA, Pique ME, Getzoff ED. Visualization of molecular flexibility and its effects on electrostatic recognition Journal of Molecular Graphics. 8: 125-132. PMID 2279008 DOI: 10.1016/0263-7855(90)80052-H  1
1990 Collawn JF, Stangel M, Kuhn LA, Esekogwu V, Jing S, Trowbridge IS, Tainer JA. Transferrin receptor internalization sequence YXRF implicates a tight turn as the structural recognition motif for endocytosis Cell. 63: 1061-1072. PMID 2257624 DOI: 10.1016/0092-8674(90)90509-D  1
1990 Kuhn LA, Griffin JH, Fisher CL, Greengard JS, Bouma BN, España F, Tainer JA. Elucidating the structural chemistry of glycosaminoglycan recognition by protein C inhibitor Proceedings of the National Academy of Sciences of the United States of America. 87: 8506-8510. PMID 2172989 DOI: 10.1073/pnas.87.21.8506  1
1989 Getzoff ED, Tainer JA, Stempien MM, Bell GI, Hallewell RA. Evolution of CuZn superoxide dismutase and the Greek key β-barrel structural motif Proteins: Structure, Function and Genetics. 5: 322-336. PMID 2798409  1
1989 McRee DE, Tainer JA, Meyer TE, Van Beeumen J, Cusanovich MA, Getzoff ED. Crystallographic structure of a photoreceptor protein at 2.4 A resolution Proceedings of the National Academy of Sciences of the United States of America. 86: 6533-6537. PMID 2771940  1
1988 Tainer JA, Hallewell RA, Roberts VA, Parge HE, Getzoff ED. Probing enzyme-substrate recognition and catalytic mechanism in Cu,Zn superoxide dismutase Basic Life Sciences. 49: 635-640. PMID 3250519  1
1988 Getzoff ED, Tainer JA, Lerner RA, Geysen HM. The chemistry and mechanism of antibody binding to protein antigens Advances in Immunology. 43: 1-98. PMID 3055852 DOI: 10.1016/S0065-2776(08)60363-6  1
1988 Mullenbach GT, Tabrizi A, Irvine BD, Bell GI, Tainer JA, Hallewell RA. Selenocysteine's mechanism of incorporation and evolution revealed in cDNAs of three glutathione peroxidases. Protein Engineering. 2: 239-46. PMID 2976939 DOI: 10.1093/protein/2.3.239  0.52
1988 Getzoff ED, Parge HE, McRee DE, Tainer JA. Understanding the structure and antigenicity of gonococcal pili Reviews of Infectious Diseases. 10: S296-299. PMID 2903537  1
1987 Getzoff ED, Geysen HM, Rodda SJ, Alexander H, Tainer JA, Lerner RA. Mechanisms of antibody binding to a protein Science. 235: 1191-1196. PMID 3823879 DOI: 10.1126/science.3823879  1
1987 Geysen HM, Tainer JA, Rodda SJ, Mason TJ, Alexander H, Getzoff ED, Lerner RA. Chemistry of antibody binding to a protein Science. 235: 1184-1190. PMID 3823878 DOI: 10.1126/science.3823878  1
1987 Parge HE, McRee DE, Capozza MA, Bernstein SL, Getzoff ED, Tainer JA. Three dimensional structure of bacterial pili Antonie Van Leeuwenhoek. 53: 447-453. PMID 2897188 DOI: 10.1007/BF00415501  1
1987 Fieser TM, Tainer JA, Geysen HM, Houghten RA, Lerner RA. Influence of protein flexibility and peptide conformation on reactivity of monoclonal anti-peptide antibodies with a protein alpha-helix. Proceedings of the National Academy of Sciences of the United States of America. 84: 8568-72. PMID 2446325 DOI: 10.1073/pnas.84.23.8568  0.52
1986 Getzoff ED, Tainer JA, Olson AJ. Recognition and interactions controlling the assemblies of beta barrel domains Biophysical Journal. 49: 191-206. PMID 3955170  1
1986 Hazzard JT, Cusanovich MA, Tainer JA, Getzoff ED, Tollin G. Kinetic studies of reduction of a 1:1 cytochrome c-flavodoxin complex by free flavin semiquinones and rubredoxin Biochemistry. 25: 3318-3328. PMID 3015203  1
1985 Tainer JA, Getzoff ED, Paterson Y, Olson AJ, Lerner RA. The atomic mobility component of protein antigenicity Annual Review of Immunology. 3: 501-535. PMID 2415142 DOI: 10.1146/annurev.iy.03.040185.002441  1
1985 Wilson IA, Haft DH, Getzoff ED, Tainer JA, Lerner RA, Brenner S. Identical short peptide sequences in unrelated proteins can have different conformations: A testing ground for theories of immune recognition Proceedings of the National Academy of Sciences of the United States of America. 82: 5255-5259. PMID 2410917 DOI: 10.1073/pnas.82.16.5255  1
1984 Tainer JA, Getzoff ED, Alexander H, Houghten RA, Olson AJ, Lerner RA, Hendrickson WA. The reactivity of anti-peptide antibodies is a function of the atomic mobility of sites in a protein Nature. 312: 127-134. PMID 6209578 DOI: 10.1038/312127a0  1
1983 Getzoff ED, Tainer JA, Weiner PK, Kollman PA, Richardson JS, Richardson DC. Electrostatic recognition between superoxide and copper, zinc superoxide dismutase. Nature. 306: 287-90. PMID 6646211 DOI: 10.1038/306287a0  1
1983 Tainer JA, Getzoff ED, Richardson JS, Richardson DC. Structure and mechanism of copper, zinc superoxide dismutase. Nature. 306: 284-7. PMID 6316150 DOI: 10.1038/306284a0  1
1982 Tainer JA, Getzoff ED, Beem KM, Richardson JS, Richardson DC. Determination and analysis of the 2 A-structure of copper, zinc superoxide dismutase. Journal of Molecular Biology. 160: 181-217. PMID 7175933 DOI: 10.1016/0022-2836(82)90174-7  1
1980 Richardson JS, Tainer JA, Richardson DC. An illustrated museum of protein structures. Biophysical Journal. 32: 211-3. PMID 19431356 DOI: 10.1016/S0006-3495(80)84934-4  0.96
1977 Lynn WS, Kylstra JA, Sahu SC, Tainer J, Shelburne J, Pratt PC, Gutknecht WF, Shaw R, Ingram P. Investigations of black bronchoalveolar human lavage fluid Chest. 72: 483-488. PMID 908217 DOI: 10.1378/chest.72.4.483  1
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