Christopher D. Lima - Publications

Weill Cornell Medical College, New York, NY, United States 

131 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
2021 Cappadocia L, Kochańczyk T, Lima CD. DNA asymmetry promotes SUMO modification of the single-stranded DNA-binding protein RPA. The Embo Journal. e103787. PMID 34585421 DOI: 10.15252/embj.2019103787  1
2021 Das M, Zattas D, Zinder JC, Wasmuth EV, Henri J, Lima CD. Substrate discrimination and quality control require each catalytic activity of TRAMP and the nuclear RNA exosome. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33782132 DOI: 10.1073/pnas.2024846118  1
2021 Ginn J, Jiang X, Sun S, Michino M, Huggins DJ, Mbambo Z, Jansen R, Rhee KY, Arango N, Lima CD, Liverton N, Imaeda T, Okamoto R, Kuroita T, Aso K, et al. Whole Cell Active Inhibitors of Mycobacterial Lipoamide Dehydrogenase Afford Selectivity over the Human Enzyme through Tight Binding Interactions. Acs Infectious Diseases. PMID 33527832 DOI: 10.1021/acsinfecdis.0c00788  1
2020 Weick EM, Lima CD. RNA helicases are hubs that orchestrate exosome-dependent 3'-5' decay. Current Opinion in Structural Biology. 67: 86-94. PMID 33147539 DOI: 10.1016/  0.01
2020 Januszyk K, Weick EM, Lima CD. Reconstitution of the Human Nuclear RNA Exosome. Methods in Molecular Biology (Clifton, N.J.). 2062: 467-489. PMID 31768991 DOI: 10.1007/978-1-4939-9822-7_23  1
2020 Januszyk K, Lima CD. Reconstitution of the Schizosaccharomyces pombe RNA Exosome. Methods in Molecular Biology (Clifton, N.J.). 2062: 449-465. PMID 31768990 DOI: 10.1007/978-1-4939-9822-7_22  1
2020 Zinder JC, Lima CD. Reconstitution of S. cerevisiae RNA Exosome Complexes Using Recombinantly Expressed Proteins. Methods in Molecular Biology (Clifton, N.J.). 2062: 427-448. PMID 31768989 DOI: 10.1007/978-1-4939-9822-7_21  0.01
2020 Weick EM, Zinder JC, Lima CD. Strategies for Generating RNA Exosome Complexes from Recombinant Expression Hosts. Methods in Molecular Biology (Clifton, N.J.). 2062: 417-425. PMID 31768988 DOI: 10.1007/978-1-4939-9822-7_20  0.01
2019 Axhemi A, Wasmuth EV, Lima CD, Jankowsky E. Substrate selectivity by the exonuclease Rrp6p. Proceedings of the National Academy of Sciences of the United States of America. PMID 31879344 DOI: 10.1073/Pnas.1913236117  1
2019 Puno MR, Weick EM, Das M, Lima CD. SnapShot: The RNA Exosome. Cell. 179: 282-282.e1. PMID 31539497 DOI: 10.1016/J.Cell.2019.09.005  0.01
2019 Hann ZS, Metzger MB, Weissman AM, Lima CD. Crystal structure of the Schizosaccharomyces pombe U7BR E2-binding region in complex with Ubc7. Acta Crystallographica. Section F, Structural Biology Communications. 75: 552-560. PMID 31397327 DOI: 10.1107/S2053230X19009786  0.01
2019 Hann ZS, Ji C, Olsen SK, Lu X, Lux MC, Tan DS, Lima CD. Structural basis for adenylation and thioester bond formation in the ubiquitin E1. Proceedings of the National Academy of Sciences of the United States of America. PMID 31235585 DOI: 10.1073/Pnas.1905488116  1
2018 Streich FC, Lima CD. Strategies to Trap Enzyme-Substrate Complexes that Mimic Michaelis Intermediates During E3-Mediated Ubiquitin-Like Protein Ligation. Methods in Molecular Biology (Clifton, N.J.). 1844: 169-196. PMID 30242710 DOI: 10.1007/978-1-4939-8706-1_12  1
2018 Weick EM, Puno MR, Januszyk K, Zinder JC, DiMattia MA, Lima CD. Helicase-Dependent RNA Decay Illuminated by a Cryo-EM Structure of a Human Nuclear RNA Exosome-MTR4 Complex. Cell. 173: 1663-1677.e21. PMID 29906447 DOI: 10.1016/J.Cell.2018.05.041  1
2018 Puno MR, Lima CD. Structural basis for MTR4-ZCCHC8 interactions that stimulate the MTR4 helicase in the nuclear exosome-targeting complex. Proceedings of the National Academy of Sciences of the United States of America. PMID 29844170 DOI: 10.1073/Pnas.1803530115  0.01
2018 Jain D, Puno MR, Meydan C, Lailler N, Mason CE, Lima CD, Anderson KV, Keeney S. ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2. Elife. 7. PMID 29360036 DOI: 10.7554/Elife.30919  0.01
2017 Wasmuth EV, Zinder JC, Zattas D, Das M, Lima CD. Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase. Elife. 6. PMID 28742025 DOI: 10.7554/Elife.29062  1
2017 Cappadocia L, Lima CD. Ubiquitin-like Protein Conjugation: Structures, Chemistry, and Mechanism. Chemical Reviews. PMID 28234446 DOI: 10.1021/Acs.Chemrev.6B00737  1
2017 Zinder JC, Lima CD. Targeting RNA for processing or destruction by the eukaryotic RNA exosome and its cofactors. Genes & Development. 31: 88-100. PMID 28202538 DOI: 10.1101/Gad.294769.116  0.01
2017 Jain D, Puno MR, Meydan C, Lailler N, Mason CE, Lima CD, Anderson KV, Keeney S. Author response: ketu mutant mice uncover an essential meiotic function for the ancient RNA helicase YTHDC2 Elife. DOI: 10.7554/Elife.30919.049  0.01
2017 Wasmuth EV, Zinder JC, Zattas D, Das M, Lima CD. Author response: Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase Elife. DOI: 10.7554/Elife.29062.023  1
2016 Wasmuth EV, Lima CD. The Rrp6 C-terminal domain binds RNA and activates the nuclear RNA exosome. Nucleic Acids Research. PMID 27899565 DOI: 10.1093/Nar/Gkw1152  1
2016 Zinder JC, Wasmuth EV, Lima CD. Nuclear RNA Exosome at 3.1 Å Reveals Substrate Specificities, RNA Paths, and Allosteric Inhibition of Rrp44/Dis3. Molecular Cell. PMID 27818140 DOI: 10.1016/J.Molcel.2016.09.038  1
2016 Streich FC, Lima CD. Capturing a substrate in an activated RING E3/E2-SUMO complex. Nature. 536: 304-8. PMID 27509863 DOI: 10.1038/Nature19071  1
2016 Doamekpor SK, Lee JW, Hepowit NL, Wu C, Charenton C, Leonard M, Bengtson MH, Rajashankar KR, Sachs MS, Lima CD, Joazeiro CA. Structure and function of the yeast listerin (Ltn1) conserved N-terminal domain in binding to stalled 60S ribosomal subunits. Proceedings of the National Academy of Sciences of the United States of America. PMID 27385828 DOI: 10.1073/Pnas.1605951113  1
2016 Békés M, van der Heden van Noort GJ, Ekkebus R, Ovaa H, Huang TT, Lima CD. Recognition of Lys48-Linked Di-ubiquitin and Deubiquitinating Activities of the SARS Coronavirus Papain-like Protease. Molecular Cell. 62: 572-585. PMID 27203180 DOI: 10.1016/J.Molcel.2016.04.016  1
2016 Bekes M, Ekkebus R, Noort GJvdHv, Ovaa H, Huang TT, Lima CD. Structural basis for the diUb-Lys48 recognition and specificity of the SARS coronavirus deubiquitinating enzyme, SARS PLpro Molecular Cell. 62. DOI: 10.2210/Pdb5E6J/Pdb  1
2015 Cappadocia L, Pichler A, Lima CD. Structural basis for catalytic activation by the human ZNF451 SUMO E3 ligase. Nature Structural & Molecular Biology. 22: 968-75. PMID 26524494 DOI: 10.1038/Nsmb.3116  1
2015 Schwer B, Ghosh A, Sanchez AM, Lima CD, Shuman S. Genetic and structural analysis of the essential fission yeast RNA polymerase II CTD phosphatase Fcp1. Rna (New York, N.Y.). 21: 1135-46. PMID 25883047 DOI: 10.1261/Rna.050286.115  1
2015 Lima CD, Sali A, Kostic M. Growing an editorial board for an ever expanding field. Structure (London, England : 1993). 23: 605. PMID 25862929 DOI: 10.1016/J.Str.2015.03.004  1
2015 Békés M, Rut W, Kasperkiewicz P, Mulder MP, Ovaa H, Drag M, Lima CD, Huang TT. SARS hCoV papain-like protease is a unique Lys48 linkage-specific di-distributive deubiquitinating enzyme. The Biochemical Journal. 468: 215-26. PMID 25764917 DOI: 10.1042/Bj20141170  1
2015 Doamekpor SK, Schwer B, Sanchez AM, Shuman S, Lima CD. Fission yeast RNA triphosphatase reads an Spt5 CTD code. Rna (New York, N.Y.). 21: 113-23. PMID 25414009 DOI: 10.1261/Rna.048181.114  1
2015 Barbosa SL, Ottone M, Santos MC, Junior GC, Lima CD, Glososki GC, Lopes NP, Klein SI. Benzyl benzoate and dibenzyl ether from of benzoic acid and benzyl alcohol under microwave irradiation using a SiO2-SO3H catalyst Catalysis Communications. 68: 97-100. DOI: 10.1016/j.catcom.2015.04.033  1
2014 Wasmuth EV, Januszyk K, Lima CD. Structure of an Rrp6-RNA exosome complex bound to poly(A) RNA. Nature. 511: 435-9. PMID 25043052 DOI: 10.1038/Nature13406  1
2014 Doamekpor SK, Sanchez AM, Schwer B, Shuman S, Lima CD. How an mRNA capping enzyme reads distinct RNA polymerase II and Spt5 CTD phosphorylation codes. Genes & Development. 28: 1323-36. PMID 24939935 DOI: 10.1101/Gad.242768.114  1
2014 Streich FC, Lima CD. Structural and functional insights to ubiquitin-like protein conjugation. Annual Review of Biophysics. 43: 357-79. PMID 24773014 DOI: 10.1146/Annurev-Biophys-051013-022958  1
2014 Januszyk K, Lima CD. The eukaryotic RNA exosome. Current Opinion in Structural Biology. 24: 132-40. PMID 24525139 DOI: 10.1016/J.Sbi.2014.01.011  1
2013 Bryk R, Arango N, Maksymiuk C, Balakrishnan A, Wu YT, Wong CH, Masquelin T, Hipskind P, Lima CD, Nathan C. Lipoamide channel-binding sulfonamides selectively inhibit mycobacterial lipoamide dehydrogenase. Biochemistry. 52: 9375-84. PMID 24251446 DOI: 10.1021/Bi401077F  1
2013 Lima CD, Sali A, Kostic M. Celebrating 20 years of Structure. Structure (London, England : 1993). 21: 1477-8. PMID 24010704 DOI: 10.1016/J.Str.2013.08.015  1
2013 O'Rourke JG, Gareau JR, Ochaba J, Song W, Raskó T, Reverter D, Lee J, Monteys AM, Pallos J, Mee L, Vashishtha M, Apostol BL, Nicholson TP, Illes K, Zhu YZ, ... ... Lima CD, et al. SUMO-2 and PIAS1 modulate insoluble mutant huntingtin protein accumulation. Cell Reports. 4: 362-75. PMID 23871671 DOI: 10.1016/J.Celrep.2013.06.034  1
2013 Olsen SK, Lima CD. Structure of a ubiquitin E1-E2 complex: insights to E1-E2 thioester transfer. Molecular Cell. 49: 884-96. PMID 23416107 DOI: 10.1016/J.Molcel.2013.01.013  1
2013 Lyumkis D, Doamekpor SK, Bengtson MH, Lee JW, Toro TB, Petroski MD, Lima CD, Potter CS, Carragher B, Joazeiro CA. Single-particle EM reveals extensive conformational variability of the Ltn1 E3 ligase. Proceedings of the National Academy of Sciences of the United States of America. 110: 1702-7. PMID 23319619 DOI: 10.1073/Pnas.1210041110  1
2013 Lima CD. Ulp1 Endopeptidase Handbook of Proteolytic Enzymes. 2: 2358-2362. DOI: 10.1016/B978-0-12-382219-2.00525-1  1
2012 Wasmuth EV, Lima CD. Structure and Activities of the Eukaryotic RNA Exosome. The Enzymes. 31: 53-75. PMID 27166440 DOI: 10.1016/B978-0-12-404740-2.00003-3  1
2012 Lima CD, Schulman BA. Structural biology: A protein engagement RING. Nature. 489: 43-4. PMID 22955611 DOI: 10.1038/489043A  1
2012 Wasmuth EV, Lima CD. Exo- and endoribonucleolytic activities of yeast cytoplasmic and nuclear RNA exosomes are dependent on the noncatalytic core and central channel. Molecular Cell. 48: 133-44. PMID 22902556 DOI: 10.1016/J.Molcel.2012.07.012  1
2012 Armstrong AA, Mohideen F, Lima CD. Recognition of SUMO-modified PCNA requires tandem receptor motifs in Srs2. Nature. 483: 59-63. PMID 22382979 DOI: 10.1038/Nature10883  1
2012 Gareau JR, Reverter D, Lima CD. Determinants of small ubiquitin-like modifier 1 (SUMO1) protein specificity, E3 ligase, and SUMO-RanGAP1 binding activities of nucleoporin RanBP2. The Journal of Biological Chemistry. 287: 4740-51. PMID 22194619 DOI: 10.1074/Jbc.M111.321141  1
2011 Lima C, Sali A, Kostic M. Structure meets the membrane. Structure (London, England : 1993). 19: 1347. PMID 22000504 DOI: 10.1016/J.Str.2011.09.009  1
2011 Januszyk K, Lima CD. Structural components and architectures of RNA exosomes. Advances in Experimental Medicine and Biology. 702: 9-28. PMID 21713674 DOI: 10.1007/978-1-4419-7841-7_2  1
2011 Januszyk K, Liu Q, Lima CD. Activities of human RRP6 and structure of the human RRP6 catalytic domain. Rna (New York, N.Y.). 17: 1566-77. PMID 21705430 DOI: 10.1261/Rna.2763111  1
2011 Ghosh A, Shuman S, Lima CD. Structural insights to how mammalian capping enzyme reads the CTD code. Molecular Cell. 43: 299-310. PMID 21683636 DOI: 10.1016/J.Molcel.2011.06.001  1
2011 Basu U, Meng FL, Keim C, Grinstein V, Pefanis E, Eccleston J, Zhang T, Myers D, Wasserman CR, Wesemann DR, Januszyk K, Gregory RI, Deng H, Lima CD, Alt FW. The RNA exosome targets the AID cytidine deaminase to both strands of transcribed duplex DNA substrates. Cell. 144: 353-63. PMID 21255825 DOI: 10.1016/J.Cell.2011.01.001  1
2010 Ghosh A, Lima CD. Enzymology of RNA cap synthesis. Wiley Interdisciplinary Reviews. Rna. 1: 152-72. PMID 21956912 DOI: 10.1002/Wrna.19  1
2010 Januszyk K, Lima CD. Structural components and architectures of RNA exosomes. Advances in Experimental Medicine and Biology. 702: 9-28. PMID 21618871  1
2010 Gareau JR, Lima CD. The SUMO pathway: emerging mechanisms that shape specificity, conjugation and recognition. Nature Reviews. Molecular Cell Biology. 11: 861-71. PMID 21102611 DOI: 10.1038/Nrm3011  1
2010 Suh MH, Meyer PA, Gu M, Ye P, Zhang M, Kaplan CD, Lima CD, Fu J. A dual interface determines the recognition of RNA polymerase II by RNA capping enzyme. The Journal of Biological Chemistry. 285: 34027-38. PMID 20720002 DOI: 10.1074/Jbc.M110.145110  1
2010 Flynt AS, Greimann JC, Chung WJ, Lima CD, Lai EC. MicroRNA biogenesis via splicing and exosome-mediated trimming in Drosophila. Molecular Cell. 38: 900-7. PMID 20620959 DOI: 10.1016/J.Molcel.2010.06.014  1
2010 de Carvalho LP, Zhao H, Dickinson CE, Arango NM, Lima CD, Fischer SM, Ouerfelli O, Nathan C, Rhee KY. Activity-based metabolomic profiling of enzymatic function: identification of Rv1248c as a mycobacterial 2-hydroxy-3-oxoadipate synthase. Chemistry & Biology. 17: 323-32. PMID 20416504 DOI: 10.1016/J.Chembiol.2010.03.009  1
2010 Olsen SK, Capili AD, Lu X, Tan DS, Lima CD. Active site remodelling accompanies thioester bond formation in the SUMO E1. Nature. 463: 906-12. PMID 20164921 DOI: 10.1038/Nature08765  1
2010 Gu M, Rajashankar KR, Lima CD. Structure of the Saccharomyces cerevisiae Cet1-Ceg1 mRNA capping apparatus. Structure (London, England : 1993). 18: 216-27. PMID 20159466 DOI: 10.1016/J.Str.2009.12.009  1
2010 Lu X, Olsen SK, Capili AD, Cisar JS, Lima CD, Tan DS. Designed semisynthetic protein inhibitors of Ub/Ubl E1 activating enzymes. Journal of the American Chemical Society. 132: 1748-9. PMID 20099854 DOI: 10.1021/Ja9088549  1
2010 Bryk R, Arango N, Venugopal A, Warren JD, Park YH, Patel MS, Lima CD, Nathan C. Triazaspirodimethoxybenzoyls as selective inhibitors of mycobacterial lipoamide dehydrogenase . Biochemistry. 49: 1616-27. PMID 20078138 DOI: 10.1021/Bi9016186  1
2009 Yunus AA, Lima CD. Structure of the Siz/PIAS SUMO E3 ligase Siz1 and determinants required for SUMO modification of PCNA. Molecular Cell. 35: 669-82. PMID 19748360 DOI: 10.1016/J.Molcel.2009.07.013  1
2009 Mohideen F, Capili AD, Bilimoria PM, Yamada T, Bonni A, Lima CD. A molecular basis for phosphorylation-dependent SUMO conjugation by the E2 UBC9. Nature Structural & Molecular Biology. 16: 945-52. PMID 19684601 DOI: 10.1038/Nsmb.1648  1
2009 Reverter D, Lima CD. Preparation of SUMO proteases and kinetic analysis using endogenous substrates. Methods in Molecular Biology (Clifton, N.J.). 497: 225-39. PMID 19107421 DOI: 10.1007/978-1-59745-566-4_15  1
2009 Yunus AA, Lima CD. Purification of SUMO conjugating enzymes and kinetic analysis of substrate conjugation. Methods in Molecular Biology (Clifton, N.J.). 497: 167-86. PMID 19107417 DOI: 10.1007/978-1-59745-566-4_11  1
2008 Greimann JC, Lima CD. Reconstitution of RNA exosomes from human and Saccharomyces cerevisiae cloning, expression, purification, and activity assays. Methods in Enzymology. 448: 185-210. PMID 19111177 DOI: 10.1016/S0076-6879(08)02610-4  1
2008 Ghosh A, Shuman S, Lima CD. The structure of Fcp1, an essential RNA polymerase II CTD phosphatase. Molecular Cell. 32: 478-90. PMID 19026779 DOI: 10.1016/J.Molcel.2008.09.021  1
2008 Lima CD, Reverter D. Structure of the human SENP7 catalytic domain and poly-SUMO deconjugation activities for SENP6 and SENP7. The Journal of Biological Chemistry. 283: 32045-55. PMID 18799455 DOI: 10.1074/Jbc.M805655200  1
2008 Mohideen F, Lima CD. SUMO takes control of a ubiquitin-specific protease. Molecular Cell. 30: 539-40. PMID 18538649 DOI: 10.1016/J.Molcel.2008.05.010  1
2008 Lima CD, Carvalho RP, Barros RML, Tudella E. Two different methods for kinematic analysis of head movements relating to eye-head coordination in infants Revista Brasileira De Fisioterapia. 12: 425-431.  1
2007 Sali A, Lima CD, Kostic M. Structural genomics. Structure (London, England : 1993). 15: 1341. PMID 17997955 DOI: 10.1016/j.str.2007.10.009  1
2007 Capili AD, Lima CD. Taking it step by step: mechanistic insights from structural studies of ubiquitin/ubiquitin-like protein modification pathways. Current Opinion in Structural Biology. 17: 726-35. PMID 17919899 DOI: 10.1016/J.Sbi.2007.08.018  1
2007 Nair PA, Nandakumar J, Smith P, Odell M, Lima CD, Shuman S. Structural basis for nick recognition by a minimal pluripotent DNA ligase. Nature Structural & Molecular Biology. 14: 770-8. PMID 17618295 DOI: 10.1038/Nsmb1266  1
2007 Capili AD, Lima CD. Structure and analysis of a complex between SUMO and Ubc9 illustrates features of a conserved E2-Ubl interaction. Journal of Molecular Biology. 369: 608-18. PMID 17466333 DOI: 10.1016/J.Jmb.2007.04.006  1
2007 Liu Q, Greimann JC, Lima CD. Reconstitution, Activities, and Structure of the Eukaryotic RNA Exosome (DOI:10.1016/j.cell.2006.10.037) Cell. 131: 188-189. DOI: 10.1016/j.cell.2007.09.019  1
2006 Liu Q, Greimann JC, Lima CD. Reconstitution, activities, and structure of the eukaryotic RNA exosome. Cell. 127: 1223-37. PMID 17174896 DOI: 10.1016/J.Cell.2006.10.037  1
2006 Reverter D, Lima CD. Structural basis for SENP2 protease interactions with SUMO precursors and conjugated substrates. Nature Structural & Molecular Biology. 13: 1060-8. PMID 17099700 DOI: 10.1038/Nsmb1168  1
2006 Nandakumar J, Shuman S, Lima CD. RNA ligase structures reveal the basis for RNA specificity and conformational changes that drive ligation forward. Cell. 127: 71-84. PMID 17018278 DOI: 10.1016/J.Cell.2006.08.038  1
2006 Zheng S, Hausmann S, Liu Q, Ghosh A, Schwer B, Lima CD, Shuman S. Mutational analysis of Encephalitozoon cuniculi mRNA cap (guanine-N7) methyltransferase, structure of the enzyme bound to sinefungin, and evidence that cap methyltransferase is the target of sinefungin's antifungal activity. The Journal of Biological Chemistry. 281: 35904-13. PMID 16971388 DOI: 10.1074/Jbc.M607292200  1
2006 Song L, Bhattacharya S, Yunus AA, Lima CD, Schindler C. Stat1 and SUMO modification. Blood. 108: 3237-44. PMID 16857984 DOI: 10.1182/Blood-2006-04-020271  1
2006 Yunus AA, Lima CD. Lysine activation and functional analysis of E2-mediated conjugation in the SUMO pathway. Nature Structural & Molecular Biology. 13: 491-9. PMID 16732283 DOI: 10.1038/Nsmb1104  1
2006 Seetharaman J, Rajashankar KR, Solorzano V, Kniewel R, Lima CD, Bonanno JB, Burley SK, Swaminathan S. Crystal structures of two putative phosphoheptose isomerases. Proteins. 63: 1092-6. PMID 16477602 DOI: 10.1002/Prot.20908  1
2006 Song F, Zhuang Z, Finci L, Dunaway-Mariano D, Kniewel R, Buglino JA, Solorzano V, Wu J, Lima CD. Structure, function, and mechanism of the phenylacetate pathway hot dog-fold thioesterase PaaI. The Journal of Biological Chemistry. 281: 11028-38. PMID 16464851 DOI: 10.1074/Jbc.M513896200  1
2006 Zhu H, Nandakumar J, Aniukwu J, Wang LK, Glickman MS, Lima CD, Shuman S. Atomic structure and nonhomologous end-joining function of the polymerase component of bacterial DNA ligase D. Proceedings of the National Academy of Sciences of the United States of America. 103: 1711-6. PMID 16446439 DOI: 10.1073/Pnas.0509083103  1
2005 Yunus AA, Lima CD. Purification and activity assays for Ubc9, the ubiquitin-conjugating enzyme for the small ubiquitin-like modifier SUMO. Methods in Enzymology. 398: 74-87. PMID 16275321 DOI: 10.1016/S0076-6879(05)98008-7  1
2005 Bonanno JB, Almo SC, Bresnick A, Chance MR, Fiser A, Swaminathan S, Jiang J, Studier FW, Shapiro L, Lima CD, Gaasterland TM, Sali A, Bain K, Feil I, Gao X, et al. New York-Structural GenomiX Research Consortium (NYSGXRC): a large scale center for the protein structure initiative. Journal of Structural and Functional Genomics. 6: 225-32. PMID 16211523 DOI: 10.1007/S10969-005-6827-0  1
2005 Rajashankar KR, Bryk R, Kniewel R, Buglino JA, Nathan CF, Lima CD. Crystal structure and functional analysis of lipoamide dehydrogenase from Mycobacterium tuberculosis. The Journal of Biological Chemistry. 280: 33977-83. PMID 16093239 DOI: 10.1074/Jbc.M507466200  1
2005 Reverter D, Lima CD. Insights into E3 ligase activity revealed by a SUMO-RanGAP1-Ubc9-Nup358 complex. Nature. 435: 687-92. PMID 15931224 DOI: 10.1038/Nature03588  1
2005 Hausmann S, Zheng S, Fabrega C, Schneller SW, Lima CD, Shuman S. Encephalitozoon cuniculi mRNA cap (guanine N-7) methyltransferase: methyl acceptor specificity, inhibition BY S-adenosylmethionine analogs, and structure-guided mutational analysis. The Journal of Biological Chemistry. 280: 20404-12. PMID 15760890 DOI: 10.1074/Jbc.M501073200  1
2005 Gu M, Lima CD. Processing the message: structural insights into capping and decapping mRNA. Current Opinion in Structural Biology. 15: 99-106. PMID 15718140 DOI: 10.1016/J.Sbi.2005.01.009  1
2005 Lima CD. Inducing interactions with the CTD. Nature Structural & Molecular Biology. 12: 102-3. PMID 15702066 DOI: 10.1038/Nsmb0205-102  1
2005 Lois LM, Lima CD. Structures of the SUMO E1 provide mechanistic insights into SUMO activation and E2 recruitment to E1. The Embo Journal. 24: 439-51. PMID 15660128 DOI: 10.1038/Sj.Emboj.7600552  1
2005 Reverter D, Wu K, Erdene TG, Pan ZQ, Wilkinson KD, Lima CD. Structure of a complex between Nedd8 and the Ulp/Senp protease family member Den1. Journal of Molecular Biology. 345: 141-51. PMID 15567417 DOI: 10.1016/J.Jmb.2004.10.022  1
2004 Shuman S, Lima CD. The polynucleotide ligase and RNA capping enzyme superfamily of covalent nucleotidyltransferases. Current Opinion in Structural Biology. 14: 757-64. PMID 15582400 DOI: 10.1016/J.Sbi.2004.10.006  1
2004 Reverter D, Lima CD. A basis for SUMO protease specificity provided by analysis of human Senp2 and a Senp2-SUMO complex. Structure (London, England : 1993). 12: 1519-31. PMID 15296745 DOI: 10.1016/J.Str.2004.05.023  1
2004 Liu SW, Jiao X, Liu H, Gu M, Lima CD, Kiledjian M. Functional analysis of mRNA scavenger decapping enzymes. Rna (New York, N.Y.). 10: 1412-22. PMID 15273322 DOI: 10.1261/Rna.7660804  1
2004 Buglino J, Onwueme KC, Ferreras JA, Quadri LE, Lima CD. Crystal structure of PapA5, a phthiocerol dimycocerosyl transferase from Mycobacterium tuberculosis. The Journal of Biological Chemistry. 279: 30634-42. PMID 15123643 DOI: 10.1074/Jbc.M404011200  1
2004 Nandakumar J, Ho CK, Lima CD, Shuman S. RNA substrate specificity and structure-guided mutational analysis of bacteriophage T4 RNA ligase 2. The Journal of Biological Chemistry. 279: 31337-47. PMID 15084599 DOI: 10.1074/Jbc.M402394200  1
2004 Onwueme KC, Ferreras JA, Buglino J, Lima CD, Quadri LE. Mycobacterial polyketide-associated proteins are acyltransferases: proof of principle with Mycobacterium tuberculosis PapA5. Proceedings of the National Academy of Sciences of the United States of America. 101: 4608-13. PMID 15070765 DOI: 10.1073/Pnas.0306928101  1
2004 Gu M, Fabrega C, Liu SW, Liu H, Kiledjian M, Lima CD. Insights into the structure, mechanism, and regulation of scavenger mRNA decapping activity. Molecular Cell. 14: 67-80. PMID 15068804 DOI: 10.1016/S1097-2765(04)00180-7  1
2004 Ho CK, Wang LK, Lima CD, Shuman S. Structure and mechanism of RNA ligase. Structure (London, England : 1993). 12: 327-39. PMID 14962393 DOI: 10.1016/J.Str.2004.01.011  1
2004 Fabrega C, Hausmann S, Shen V, Shuman S, Lima CD. Structure and mechanism of mRNA cap (guanine-N7) methyltransferase. Molecular Cell. 13: 77-89. PMID 14731396 DOI: 10.1016/S1097-2765(03)00522-7  1
2004 Hemelaar J, Borodovsky A, Kessler BM, Reverter D, Cook J, Kolli N, Gan-Erdene T, Wilkinson KD, Gill G, Lima CD, Ploegh HL, Ovaa H. Specific and covalent targeting of conjugating and deconjugating enzymes of ubiquitin-like proteins. Molecular and Cellular Biology. 24: 84-95. PMID 14673145 DOI: 10.1128/Mcb.24.1.84-95.2004  1
2003 Fabrega C, Shen V, Shuman S, Lima CD. Structure of an mRNA capping enzyme bound to the phosphorylated carboxy-terminal domain of RNA polymerase II. Molecular Cell. 11: 1549-61. PMID 12820968 DOI: 10.1016/S1097-2765(03)00187-4  1
2003 Lima CD. CUE'd up for Monoubiquitin. Cell. 113: 554-6. PMID 12787494 DOI: 10.1016/S0092-8674(03)00398-2  1
2003 Lois LM, Lima CD, Chua NH. Small ubiquitin-like modifier modulates abscisic acid signaling in Arabidopsis. The Plant Cell. 15: 1347-59. PMID 12782728 DOI: 10.1105/Tpc.009902  1
2003 Lima CD. Regulating UBP-mediated ubiquitin deconjugation. Structure (London, England : 1993). 11: 3-4. PMID 12517332 DOI: 10.1016/S0969-2126(02)00939-5  1
2003 Burling FT, Kniewel R, Buglino JA, Chadha T, Beckwith A, Lima CD. Structure of Escherichia coli uridine phosphorylase at 2.0 A. Acta Crystallographica. Section D, Biological Crystallography. 59: 73-6. PMID 12499542 DOI: 10.1107/S0907444902018929  1
2002 Kniewel R, Buglino JA, Shen V, Chadha T, Beckwith A, Lima CD. Structural analysis of Saccharomyces cerevisiae myo-inositol phosphate synthase. Journal of Structural and Functional Genomics. 2: 129-34. PMID 12836703 DOI: 10.1023/A:1021293408654  1
2002 Buglino J, Shen V, Hakimian P, Lima CD. Structural and biochemical analysis of the Obg GTP binding protein. Structure (London, England : 1993). 10: 1581-92. PMID 12429099 DOI: 10.1016/S0969-2126(02)00882-1  1
2002 Wang LK, Lima CD, Shuman S. Structure and mechanism of T4 polynucleotide kinase: an RNA repair enzyme. The Embo Journal. 21: 3873-80. PMID 12110598 DOI: 10.1093/Emboj/Cdf397  1
2002 Lima CD. Bridging the gap between SCF and ubiquitin transfer. Structure (London, England : 1993). 10: 741-2. PMID 12057190 DOI: 10.1016/S0969-2126(02)00785-2  1
2002 Chance MR, Bresnick AR, Burley SK, Jiang JS, Lima CD, Sali A, Almo SC, Bonanno JB, Buglino JA, Boulton S, Chen H, Eswar N, He G, Huang R, Ilyin V, et al. Structural genomics: a pipeline for providing structures for the biologist. Protein Science : a Publication of the Protein Society. 11: 723-38. PMID 11910018 DOI: 10.1110/Ps.4570102  1
2002 Bernier-Villamor V, Sampson DA, Matunis MJ, Lima CD. Structural basis for E2-mediated SUMO conjugation revealed by a complex between ubiquitin-conjugating enzyme Ubc9 and RanGAP1. Cell. 108: 345-56. PMID 11853669 DOI: 10.1016/S0092-8674(02)00630-X  1
2002 Lima CD. Analysis of the E. coli NifS CsdB protein at 2.0 A reveals the structural basis for perselenide and persulfide intermediate formation. Journal of Molecular Biology. 315: 1199-208. PMID 11827487 DOI: 10.1006/Jmbi.2001.5308  1
2002 Bryk R, Lima CD, Erdjument-Bromage H, Tempst P, Nathan C. Metabolic enzymes of mycobacteria linked to antioxidant defense by a thioredoxin-like protein Science. 295: 1073-1077. PMID 11799204 DOI: 10.1126/Science.1067798  1
2002 Lima CD, Nakamura T. Exploiting loop-level parallelism with the Shift Architecture Proceedings - Symposium On Computer Architecture and High Performance Computing. 2002: 184-191. DOI: 10.1109/CAHPC.2002.1180775  1
2002 Lima CD, Sano K, Kitajima H, Nakamura T. Evaluating Performance of Microprocessors in Future Generations of CMOS Technology Proceedings of the First International Conference On Information Technology and Applications (Icita 2002). 477-482.  1
2000 Mossessova E, Lima CD. Ulp1-SUMO crystal structure and genetic analysis reveal conserved interactions and a regulatory element essential for cell growth in yeast Molecular Cell. 5: 865-876. PMID 10882122 DOI: 10.1016/S1097-2765(00)80326-3  1
1999 Lima CD, Wang LK, Shuman S. Structure and mechanism of yeast RNA triphosphatase: An essential component of the mRNA capping apparatus Cell. 99: 533-543. PMID 10589681 DOI: 10.1016/S0092-8674(00)81541-X  1
1999 Feinberg H, Lima CD, Mondragón A. Conformational changes in E. coli DNA topoisomerase I. Nature Structural Biology. 6: 918-22. PMID 10504724 DOI: 10.1038/13283  1
1998 Klein MG, Yao Y, Slosberg ED, Lima CD, Doki Y, Weinstein IB. Characterization of PKCI and comparative studies with FHIT, related members of the HIT protein family. Experimental Cell Research. 244: 26-32. PMID 9770345 DOI: 10.1006/Excr.1998.4153  1
1998 Shapiro L, Lima CD. The argonne structural genomics workshop: Lamaze class for the birth of a new science Structure. 6: 265-268. PMID 9551549 DOI: 10.1016/S0969-2126(98)00030-6  1
1997 Lima CD, Klein MG, Hendrickson WA. Structure-based analysis of catalysis and substrate definition in the HIT protein family. Science (New York, N.Y.). 278: 286-90. PMID 9323207 DOI: 10.1126/Science.278.5336.286  1
1997 Lima CD, D'Amico KL, Naday I, Rosenbaum G, Westbrook EM, Hendrickson WA. MAD analysis of FHIT, a putative human tumor suppressor from the HIT protein family. Structure (London, England : 1993). 5: 763-74. PMID 9261067 DOI: 10.1016/S0969-2126(97)00231-1  1
1996 Lima CD, Klein MG, Weinstein IB, Hendrickson WA. Three-dimensional structure of human protein kinase C interacting protein 1, a member of the HIT family of proteins. Proceedings of the National Academy of Sciences of the United States of America. 93: 5357-62. PMID 8643579 DOI: 10.1073/Pnas.93.11.5357  1
1994 Lima CD, Wang JC, Mondragón A. Three-dimensional structure of the 67K N-terminal fragment of E. coli DNA topoisomerase I. Nature. 367: 138-46. PMID 8114910 DOI: 10.1038/367138A0  1
1994 Lima CD, Mondragón A. Mechanism of type II DNA topoisomerases: a tale of two gates. Structure (London, England : 1993). 2: 559-60. PMID 7922032 DOI: 10.1016/S0969-2126(00)00055-1  1
1993 Lima CD, Wang JC, Mondragón A. Crystallization of a 67 kDa fragment of Escherichia coli DNA topoisomerase I. Journal of Molecular Biology. 232: 1213-6. PMID 8396651 DOI: 10.1006/Jmbi.1993.1474  1
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