| Year |
Citation |
Score |
| 2023 |
Lawson CL, Berman HM, Chen L, Vallat B, Zirbel CL. The Nucleic Acid Knowledgebase: a new portal for 3D structural information about nucleic acids. Nucleic Acids Research. PMID 37953312 DOI: 10.1093/nar/gkad957 |
0.311 |
|
| 2022 |
Westbrook JD, Young JY, Shao C, Feng Z, Guranovic V, Lawson CL, Vallat B, Adams PD, Berrisford JM, Bricogne G, Diederichs K, Joosten RP, Keller P, Moriarty NW, Sobolev OV, ... ... Berman HM, et al. PDBx/mmCIF Ecosystem: Foundational Semantic Tools for Structural Biology. Journal of Molecular Biology. 167599. PMID 35460671 DOI: 10.1016/j.jmb.2022.167599 |
0.306 |
|
| 2022 |
Berman HM, Lawson CL, Schneider B. Developing Community Resources for Nucleic Acid Structures. Life (Basel, Switzerland). 12. PMID 35455031 DOI: 10.3390/life12040540 |
0.53 |
|
| 2021 |
Burley SK, Berman HM. Open-access data: A cornerstone for artificial intelligence approaches to protein structure prediction. Structure (London, England : 1993). 29: 515-520. PMID 33984281 DOI: 10.1016/j.str.2021.04.010 |
0.307 |
|
| 2020 |
Berman HM, Vallat B, Lawson CL. The data universe of structural biology. Iucrj. 7: 630-638. PMID 32695409 DOI: 10.1107/S205225252000562X |
0.391 |
|
| 2020 |
Goodsell DS, Zardecki C, Berman HM, Burley SK. Insights from 20 years of the Molecule of the Month. Biochemistry and Molecular Biology Education : a Bimonthly Publication of the International Union of Biochemistry and Molecular Biology. PMID 32558264 DOI: 10.1002/Bmb.21360 |
0.37 |
|
| 2020 |
Lawson CL, Berman HM, Chiu W. Evolving data standards for cryo-EM structures. Structural Dynamics (Melville, N.Y.). 7: 014701. PMID 32002441 DOI: 10.1063/1.5138589 |
0.41 |
|
| 2019 |
Berman HM, Adams PD, Bonvin AA, Burley SK, Carragher B, Chiu W, DiMaio F, Ferrin TE, Gabanyi MJ, Goddard TD, Griffin PR, Haas J, Hanke CA, Hoch JC, Hummer G, et al. Federating Structural Models and Data: Outcomes from A Workshop on Archiving Integrative Structures. Structure (London, England : 1993). PMID 31780431 DOI: 10.1016/J.Str.2019.11.002 |
0.396 |
|
| 2019 |
Sagendorf JM, Markarian N, Berman HM, Rohs R. DNAproDB: an expanded database and web-based tool for structural analysis of DNA-protein complexes. Nucleic Acids Research. PMID 31612957 DOI: 10.1093/Nar/Gkz889 |
0.444 |
|
| 2019 |
Vallat B, Webb B, Westbrook J, Sali A, Berman HM. Archiving and disseminating integrative structure models. Journal of Biomolecular Nmr. PMID 31278630 DOI: 10.1007/S10858-019-00264-2 |
0.364 |
|
| 2019 |
Berman H, Vallat B, Westbrook J, Webb B, Sali A. Archiving of Integrative/Hybrid Structural Models Biophysical Journal. 116: 329a. DOI: 10.1016/J.Bpj.2018.11.1785 |
0.332 |
|
| 2018 |
Berman HM, Lawson CL, Vallat B, Gabanyi MJ. Anticipating innovations in structural biology. Quarterly Reviews of Biophysics. 51: e8. PMID 30912485 DOI: 10.1017/S0033583518000057 |
0.374 |
|
| 2018 |
Berman HM, Trewhella J, Vallat B, Westbrook JD. Archiving of Integrative Structural Models. Advances in Experimental Medicine and Biology. 1105: 261-272. PMID 30617834 DOI: 10.1007/978-981-13-2200-6_16 |
0.375 |
|
| 2018 |
Burley SK, Berman HM, Bhikadiya C, Bi C, Chen L, Di Costanzo L, Christie C, Dalenberg K, Duarte JM, Dutta S, Feng Z, Ghosh S, Goodsell DS, Green RK, Guranovic V, et al. RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy. Nucleic Acids Research. PMID 30357411 DOI: 10.1093/Nar/Gky1004 |
0.389 |
|
| 2018 |
Young JY, Westbrook JD, Feng Z, Peisach E, Persikova I, Sala R, Sen S, Berrisford JM, Swaminathan GJ, Oldfield TJ, Gutmanas A, Igarashi R, Armstrong DR, Baskaran K, Chen L, ... ... Berman HM, et al. Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data. Database : the Journal of Biological Databases and Curation. 2018. PMID 29688351 DOI: 10.1093/Database/Bay002 |
0.382 |
|
| 2018 |
Vallat B, Webb B, Westbrook JD, Sali A, Berman HM. Development of a Prototype System for Archiving Integrative/Hybrid Structure Models of Biological Macromolecules. Structure (London, England : 1993). PMID 29657133 DOI: 10.1016/J.Str.2018.03.011 |
0.381 |
|
| 2017 |
Gore S, Sanz García E, Hendrickx PMS, Gutmanas A, Westbrook JD, Yang H, Feng Z, Baskaran K, Berrisford JM, Hudson BP, Ikegawa Y, Kobayashi N, Lawson CL, Mading S, Mak L, ... ... Berman HM, et al. Validation of Structures in the Protein Data Bank. Structure (London, England : 1993). 25: 1916-1927. PMID 29174494 DOI: 10.1016/J.Str.2017.10.009 |
0.392 |
|
| 2017 |
Burley SK, Berman HM, Christie C, Duarte J, Feng Z, Westbrook J, Young J, Zardecki C. RCSB Protein Data Bank: Sustaining a living digital data resource that enables breakthroughs in scientific research and biomedical education. Protein Science : a Publication of the Protein Society. PMID 29067736 DOI: 10.1107/S0108767318098811 |
0.38 |
|
| 2017 |
Burley SK, Berman HM, Kleywegt GJ, Markley JL, Nakamura H, Velankar S. Protein Data Bank (PDB): The Single Global Macromolecular Structure Archive. Methods in Molecular Biology (Clifton, N.J.). 1607: 627-641. PMID 28573592 DOI: 10.1007/978-1-4939-7000-1_26 |
0.406 |
|
| 2017 |
Sagendorf JM, Berman HM, Rohs R. DNAproDB: an interactive tool for structural analysis of DNA-protein complexes. Nucleic Acids Research. PMID 28431131 DOI: 10.1093/Nar/Gkx272 |
0.387 |
|
| 2017 |
Young JY, Westbrook JD, Feng Z, Sala R, Peisach E, Oldfield TJ, Sen S, Gutmanas A, Armstrong DR, Berrisford JM, Chen L, Chen M, Di Costanzo L, Dimitropoulos D, Gao G, ... ... Berman HM, et al. OneDep: Unified wwPDB System for Deposition, Biocuration, and Validation of Macromolecular Structures in the PDB Archive. Structure (London, England : 1993). PMID 28190782 DOI: 10.1016/J.Str.2017.01.004 |
0.303 |
|
| 2016 |
Rose PW, Prlić A, Altunkaya A, Bi C, Bradley AR, Christie CH, Costanzo LD, Duarte JM, Dutta S, Feng Z, Green RK, Goodsell DS, Hudson B, Kalro T, Lowe R, ... ... Berman HM, et al. The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Research. PMID 27794042 DOI: 10.1093/Nar/Gkw1000 |
0.415 |
|
| 2016 |
Berman HM, Burley SK, Kleywegt GJ, Markley JL, Nakamura H, Velankar S. The archiving and dissemination of biological structure data. Current Opinion in Structural Biology. 40: 17-22. PMID 27450113 DOI: 10.1016/J.Sbi.2016.06.018 |
0.384 |
|
| 2016 |
Yang H, Peisach E, Westbrook JD, Young J, Berman HM, Burley SK. DCC: a Swiss army knife for structure factor analysis and validation. Journal of Applied Crystallography. 49: 1081-1084. PMID 27275151 DOI: 10.1107/S1600576716004428 |
0.378 |
|
| 2016 |
Adams PD, Aertgeerts K, Bauer C, Bell JA, Berman HM, Bhat TN, Blaney JM, Bolton E, Bricogne G, Brown D, Burley SK, Case DA, Clark KL, Darden T, Emsley P, et al. Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop. Structure (London, England : 1993). 24: 502-8. PMID 27050687 DOI: 10.1016/J.Str.2016.02.017 |
0.338 |
|
| 2016 |
Rose P, Prlic A, Bi C, Christie C, Duarte J, Fang Z, Green RK, Kalro T, Randle C, Westbrook J, Woo J, Yang H, Young J, Zardecki C, Berman H, et al. RCSB Protein Data Bank: Views of structural biology for basic and applied research F1000research. 5. DOI: 10.7490/F1000Research.1112696.1 |
0.396 |
|
| 2015 |
Lawson CL, Patwardhan A, Baker ML, Hryc C, Garcia ES, Hudson BP, Lagerstedt I, Ludtke SJ, Pintilie G, Sala R, Westbrook JD, Berman HM, Kleywegt GJ, Chiu W. EMDataBank unified data resource for 3DEM. Nucleic Acids Research. PMID 26578576 DOI: 10.1093/Nar/Gkv1126 |
0.365 |
|
| 2015 |
Sali A, Berman HM, Schwede T, Trewhella J, Kleywegt G, Burley SK, Markley J, Nakamura H, Adams P, Bonvin AM, Chiu W, Peraro MD, Di Maio F, Ferrin TE, Grünewald K, et al. Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop. Structure (London, England : 1993). PMID 26095030 DOI: 10.1016/J.Str.2015.05.013 |
0.33 |
|
| 2015 |
Goodsell DS, Dutta S, Zardecki C, Voigt M, Berman HM, Burley SK. The RCSB PDB "Molecule of the Month": Inspiring a Molecular View of Biology. Plos Biology. 13: e1002140. PMID 25942442 DOI: 10.1371/Journal.Pbio.1002140 |
0.328 |
|
| 2015 |
Berman HM, Gabanyi MJ, Groom CR, Johnson JE, Murshudov GN, Nicholls RA, Reddy V, Schwede T, Zimmerman MD, Westbrook J, Minor W. Data to knowledge: how to get meaning from your result. Iucrj. 2: 45-58. PMID 25610627 DOI: 10.1107/S2052252514023306 |
0.406 |
|
| 2015 |
Gabanyi MJ, Berman HM. Protein structure annotation resources. Methods in Molecular Biology (Clifton, N.J.). 1261: 3-20. PMID 25502191 DOI: 10.1007/978-1-4939-2230-7_1 |
0.421 |
|
| 2015 |
Rose PW, Prli? A, Bi C, Bluhm WF, Christie CH, Dutta S, Green RK, Goodsell DS, Westbrook JD, Woo J, Young J, Zardecki C, Berman HM, Bourne PE, Burley SK. The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Research. 43: D345-56. PMID 25428375 DOI: 10.1093/Nar/Gku1214 |
0.401 |
|
| 2015 |
Quinn GB, Bi C, Christie CH, Pang K, Prli? A, Nakane T, Zardecki C, Voigt M, Berman HM, Bourne PE, Rose PW. RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank. Bioinformatics (Oxford, England). 31: 126-7. PMID 25183487 DOI: 10.1093/Bioinformatics/Btu596 |
0.313 |
|
| 2014 |
Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Berman HM. Establishing the Next Generation of the Protein Data Bank The Winnower. DOI: 10.15200/Winn.140076.68556 |
0.316 |
|
| 2014 |
Gabanyi M, Adams P, Chen L, DePietro P, Gifford L, Haas J, Minor W, McLaughlin W, Schwede T, Tao Y, Westbrook J, Zimmerman M, Berman H. Structural Biology Knowledgebase: An Integrated Resource for Modern Biologists Acta Crystallographica Section a Foundations and Advances. 70: C493-C493. DOI: 10.1107/S2053273314095060 |
0.429 |
|
| 2014 |
Berman H. The history of the PDB as a public resource for enabling science Acta Crystallographica Section a Foundations and Advances. 70: C934-C934. DOI: 10.1107/S2053273314090652 |
0.407 |
|
| 2014 |
Battle G, Zardecki C, Haruki N, Kleywegt G, Berman H, Nakamura H, Conroy M. Educational Outreach and User Training at the Worldwide Protein Data Bank Acta Crystallographica Section a Foundations and Advances. 70: C1271-C1271. DOI: 10.1107/S2053273314087282 |
0.411 |
|
| 2013 |
Goodsell DS, Burley SK, Berman HM. Revealing structural views of biology. Biopolymers. 99: 817-24. PMID 23821527 DOI: 10.1002/Bip.22338 |
0.437 |
|
| 2013 |
Berman HM, Coimbatore Narayanan B, Costanzo LD, Dutta S, Ghosh S, Hudson BP, Lawson CL, Peisach E, Prli? A, Rose PW, Shao C, Yang H, Young J, Zardecki C. Trendspotting in the Protein Data Bank Febs Letters. 587: 1036-1045. PMID 23337870 DOI: 10.1016/J.Febslet.2012.12.029 |
0.433 |
|
| 2012 |
Berman HM. Creating a community resource for protein science Protein Science. 21: 1587-1596. PMID 22969036 DOI: 10.1002/Pro.2154 |
0.349 |
|
| 2012 |
Berman HM, Henrick K, Kleywegt G, Nakamura H, Markley J. The Worldwide Protein Data Bank International Tables For Crystallography. DOI: 10.1107/97809553602060000896 |
0.395 |
|
| 2012 |
Wodak SJ, Vagin AA, Richelle J, Das U, Pontius J, Berman HM. Chapter 21.2 Assessing the quality of macromolecular structures International Tables For Crystallography. DOI: 10.1107/97809553602060000880 |
0.339 |
|
| 2011 |
Kryshtafovych A, Moult J, Bartual SG, Bazan JF, Berman H, Casteel DE, Christodoulou E, Everett JK, Hausmann J, Heidebrecht T, Hills T, Hui R, Hunt JF, Seetharaman J, Joachimiak A, et al. Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction. Proteins. 79: 6-20. PMID 22020785 DOI: 10.1002/Prot.23196 |
0.374 |
|
| 2011 |
Gabanyi MJ, Adams PD, Arnold K, Bordoli L, Carter LG, Flippen-Andersen J, Gifford L, Haas J, Kouranov A, McLaughlin WA, Micallef DI, Minor W, Shah R, Schwede T, Tao YP, ... ... Berman HM, et al. The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. Journal of Structural and Functional Genomics. 12: 45-54. PMID 21472436 DOI: 10.1007/S10969-011-9106-2 |
0.32 |
|
| 2011 |
Gabanyi MJ, Adams PD, Arnold K, Bordoli L, Carter LG, Flippen-Andersen J, Gifford L, Haas J, Kouranov A, McLaughlin WA, Micallef DI, Minor W, Shah R, Schwede T, Tao YP, ... ... Berman HM, et al. The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. Journal of Structural and Functional Genomics. 12: 45-54. PMID 21472436 DOI: 10.1007/S10969-011-9106-2 |
0.32 |
|
| 2011 |
Bluhm WF, Beran B, Bi C, Dimitropoulos D, Prliá A, Quinn GB, Rose PW, Shah C, Young J, Yukich B, Berman HM, Bourne PE. Quality assurance for the query and distribution systems of the RCSB Protein Data Bank Database. 2011. PMID 21382834 DOI: 10.1093/Database/Bar003 |
0.338 |
|
| 2011 |
Rose PW, Beran B, Bi C, Bluhm WF, Dimitropoulos D, Goodsell DS, Prli? A, Quesada M, Quinn GB, Westbrook JD, Young J, Yukich B, Zardecki C, Berman HM, Bourne PE. The RCSB Protein Data Bank: Redesigned web site and web services Nucleic Acids Research. 39: D392-D401. PMID 21036868 DOI: 10.1093/Nar/Gkq1021 |
0.378 |
|
| 2011 |
Lawson CL, Baker ML, Best C, Bi C, Dougherty M, Feng P, van Ginkel G, Devkota B, Lagerstedt I, Ludtke SJ, Newman RH, Oldfield TJ, Rees I, Sahni G, Sala R, ... ... Berman HM, et al. EMDataBank.org: unified data resource for CryoEM. Nucleic Acids Research. 39: D456-64. PMID 20935055 DOI: 10.1093/Nar/Gkq880 |
0.302 |
|
| 2011 |
Lawson CL, Baker ML, Best C, Bi C, Dougherty M, Feng P, van Ginkel G, Devkota B, Lagerstedt I, Ludtke SJ, Newman RH, Oldfield TJ, Rees I, Sahni G, Sala R, ... ... Berman HM, et al. EMDataBank.org: unified data resource for CryoEM. Nucleic Acids Research. 39: D456-64. PMID 20935055 DOI: 10.1093/Nar/Gkq880 |
0.302 |
|
| 2011 |
Berman HM, Kleywegt GJ, Markley JL, Nakamura H. The wwPDB and future perspectives in sharing macromolecular data Acta Crystallographica Section a Foundations of Crystallography. 67: C72-C72. DOI: 10.1107/S0108767311098266 |
0.311 |
|
| 2011 |
Westbrook J, Gabanyi M, Tao Y-, Shah R, Micallef D, McLaughlin W, Schwede T, Arnold K, Bordoli L, Adams P, Minor W, Berman H. The Structural Biology Knowledgebase – structures, functions, methods and more Acta Crystallographica Section a Foundations of Crystallography. 67: C555-C555. DOI: 10.1107/S0108767311085953 |
0.372 |
|
| 2011 |
Gabanyi M, Westbrook J, Tao W, Shah R, Micallef D, McLaughlin W, Schwede T, Arnold K, Bordoli L, Adams P, Minor W, Berman H. The Structural Biology Knowledgebase - search Online for Protein Sequences, Structures, Functions, Methods and More Biophysical Journal. 100: 319a. DOI: 10.1016/J.Bpj.2010.12.1943 |
0.425 |
|
| 2011 |
Bourne PE, Beran B, Bi C, Bluhm WF, Dimitropoulos D, Feng Z, Goodsell DS, Prli? A, Quinn GB, Rose PW, Westbrook J, Yukich B, Young J, Zardecki C, Berman HM. The evolution of the RCSB Protein Data Bank website Wiley Interdisciplinary Reviews: Computational Molecular Science. 1: 782-789. DOI: 10.1002/Wcms.57 |
0.429 |
|
| 2010 |
Dutta S, Zardecki C, Goodsell DS, Berman HM. Promoting a structural view of biology for varied audiences: an overview of RCSB PDB resources and experiences. Journal of Applied Crystallography. 43: 1224-1229. PMID 20877496 DOI: 10.1107/S002188981002371X |
0.373 |
|
| 2010 |
Kouranov A, Westbrook J, Gabanyi M, Tao Y, Shah R, Schwede T, Arnold K, Kiefer F, Bordoli L, Adams P, Carter L, Minor W, Nair R, LaBaer J, Berman HM. How to use the PSI Structural Genomics Knowledgebase to Enable Research Biophysical Journal. 98: 250a. DOI: 10.1016/J.Bpj.2009.12.1360 |
0.399 |
|
| 2010 |
Carter L, Gabanyi M, Berman HM, Adams P. The PSI SGKB Technology Portal - An Online Database of Structural Genomics Technologies Biophysical Journal. 98: 250a. DOI: 10.1016/J.Bpj.2009.12.1358 |
0.344 |
|
| 2009 |
Hudson BP, Quispe J, Lara-González S, Kim Y, Berman HM, Arnold E, Ebright RH, Lawson CL. Three-dimensional EM structure of an intact activator-dependent transcription initiation complex Proceedings of the National Academy of Sciences of the United States of America. 106: 19830-19835. PMID 19903881 DOI: 10.1073/Pnas.0908782106 |
0.345 |
|
| 2009 |
Locasale JW, Napoli AA, Chen S, Berman HM, Lawson CL. Signatures of Protein-DNA Recognition in Free DNA Binding Sites Journal of Molecular Biology. 386: 1054-1065. PMID 19244617 DOI: 10.1016/J.Jmb.2009.01.007 |
0.369 |
|
| 2009 |
Arnold K, Kiefer F, Kopp J, Battey JND, Podvinec M, Westbrook JD, Berman HM, Bordoli L, Schwede T. The Protein Model Portal Journal of Structural and Functional Genomics. 10: 1-8. PMID 19037750 DOI: 10.1007/S10969-008-9048-5 |
0.398 |
|
| 2009 |
Berman HM, Westbrook JD, Gabanyi MJ, Tao W, Shah R, Kouranov A, Schwede T, Arnold K, Kiefer F, Bordoli L, Kopp J, Podvinec M, Adams PD, Carter LG, Minor W, et al. The protein structure initiative structural genomics knowledgebase. Nucleic Acids Research. 37: D365-8. PMID 19010965 DOI: 10.1093/Nar/Gkn790 |
0.305 |
|
| 2009 |
Berman HM, Westbrook JD, Gabanyi MJ, Tao W, Shah R, Kouranov A, Schwede T, Arnold K, Kiefer F, Bordoli L, Kopp J, Podvinec M, Adams PD, Carter LG, Minor W, et al. The protein structure initiative structural genomics knowledgebase. Nucleic Acids Research. 37: D365-8. PMID 19010965 DOI: 10.1093/Nar/Gkn790 |
0.305 |
|
| 2008 |
Lawson CL, Dutta S, Westbrook JD, Henrick K, Berman HM. Representation of viruses in the remediated PDB archive Acta Crystallographica Section D: Biological Crystallography. 64: 874-882. PMID 18645236 DOI: 10.1107/S0907444908017393 |
0.306 |
|
| 2008 |
Markley JL, Ulrich EL, Berman HM, Henrick K, Nakamura H, Akutsu H. BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): New policies affecting biomolecular NMR depositions Journal of Biomolecular Nmr. 40: 153-155. PMID 18288446 DOI: 10.1007/S10858-008-9221-Y |
0.427 |
|
| 2008 |
Richardson JS, Schneider B, Murray LW, Kapral GJ, Immormino RM, Headd JJ, Richardson DC, Ham D, Hershkovits E, Williams LD, Keating KS, Pyle AM, Micallef D, Westbrook J, Berman HM, et al. RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution). Rna (New York, N.Y.). 14: 465-81. PMID 18192612 DOI: 10.1261/Rna.657708 |
0.52 |
|
| 2008 |
Richardson JS, Schneider B, Murray LW, Kapral GJ, Immormino RM, Headd JJ, Richardson DC, Ham D, Hershkovits E, Williams LD, Keating KS, Pyle AM, Micallef D, Westbrook J, Berman HM, et al. RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution). Rna (New York, N.Y.). 14: 465-81. PMID 18192612 DOI: 10.1261/Rna.657708 |
0.52 |
|
| 2008 |
Berman HM. Harnessing Knowledge from Structural Genomics Structure. 16: 16-18. PMID 18184578 DOI: 10.1016/J.Str.2007.12.003 |
0.397 |
|
| 2008 |
Berman H, Adams P, Kouranov A, Nair R, Tao W, Schwede T, Shah R, Westbrook J. The PSI structural genomics knowledgebase Acta Crystallographica Section a Foundations of Crystallography. 64: C364-C364. DOI: 10.1107/S0108767308088363 |
0.31 |
|
| 2007 |
Berman HM. The Protein Data Bank: A historical perspective Acta Crystallographica Section a: Foundations of Crystallography. 64: 88-95. PMID 18156675 DOI: 10.1107/S0108767307035623 |
0.393 |
|
| 2007 |
Berman H, Henrick K, Nakamura H, Markley JL. The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data. Nucleic Acids Research. 35: D301-3. PMID 17142228 DOI: 10.1093/Nar/Gkl971 |
0.38 |
|
| 2006 |
Berman HM, Burley SK, Chiu W, Sali A, Adzhubei A, Bourne PE, Bryant SH, Dunbrack RL, Fidelis K, Frank J, Godzik A, Henrick K, Joachimiak A, Heymann B, Jones D, et al. Outcome of a Workshop on Archiving Structural Models of Biological Macromolecules Structure. 14: 1211-1217. PMID 16955948 DOI: 10.1016/J.Str.2006.06.005 |
0.3 |
|
| 2006 |
Bella J, Liu J, Kramer R, Brodsky B, Berman HM. Conformational Effects of Gly-X-Gly Interruptions in the Collagen Triple Helix Journal of Molecular Biology. 362: 298-311. PMID 16919298 DOI: 10.1016/J.Jmb.2006.07.014 |
0.358 |
|
| 2006 |
Napoli AA, Lawson CL, Ebright RH, Berman HM. Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA complex: Recognition of pyrimidine-purine and purine-purine steps Journal of Molecular Biology. 357: 173-183. PMID 16427082 DOI: 10.1016/J.Jmb.2005.12.051 |
0.335 |
|
| 2006 |
Kouranov A, Xie L, de la Cruz J, Chen L, Westbrook J, Bourne PE, Berman HM. The RCSB PDB information portal for structural genomics. Nucleic Acids Research.. 34: D302-305. PMID 16381872 DOI: 10.1093/Nar/Gkj120 |
0.351 |
|
| 2006 |
Westbrook JD, Yang H, Feng Z, Berman HM. Chapter 5.5 The use of mmCIF architecture for PDB data management International Tables For Crystallography. DOI: 10.1107/97809553602060000755 |
0.372 |
|
| 2006 |
Fitzgerald PMD, Westbrook JD, Bourne PE, McMahon B, Watenpaugh KD, Berman HM. Classification and use of macromolecular data International Tables For Crystallography. DOI: 10.1107/97809553602060000738 |
0.419 |
|
| 2006 |
Westbrook JD, Berman HM, Hall S. Specification of a relational dictionary definition language (DDL2) International Tables For Crystallography. DOI: 10.1107/97809553602060000732 |
0.333 |
|
| 2006 |
Berman HM, Westbrook J, Feng Z, Gilliland GL, Bhat TN, Weissig H, Shindyalov IN, Bourne PE. The Protein Data Bank, 1999– International Tables For Crystallography. 675-684. DOI: 10.1107/97809553602060000722 |
0.382 |
|
| 2006 |
Wodak SJ, Vagin AA, Richelle J, Das U, Pontius J, Berman HM. Assessing the quality of macromolecular structures International Tables For Crystallography. DOI: 10.1107/97809553602060000708 |
0.344 |
|
| 2006 |
Schneider B, Berman HM. Basics of nucleic acid structure Computational Studies of Rna and Dna. 1-44. DOI: 10.1007/978-1-4020-4851-3_1 |
0.55 |
|
| 2005 |
Dutta S, Berman HM. Large macromolecular complexes in the protein data bank: A status report Structure. 13: 381-388. PMID 15766539 DOI: 10.1016/J.Str.2005.01.008 |
0.381 |
|
| 2005 |
McLaughlin WA, Kulp DW, De La Cruz J, Lu XJ, Lawson CL, Berman HM. A structure-based method for identifying DNA-binding proteins and their sites of DNA-interaction Journal of Structural and Functional Genomics. 5: 255-265. PMID 15704013 DOI: 10.1007/S10969-005-4902-1 |
0.363 |
|
| 2005 |
Berman HM, Ten Eyck LF, Goodsell DS, Haste NM, Kornev A, Taylor SS. The cAMP binding domain: An ancient signaling module Proceedings of the National Academy of Sciences of the United States of America. 102: 45-50. PMID 15618393 DOI: 10.1073/Pnas.0408579102 |
0.308 |
|
| 2005 |
Deshpande N, Addess KJ, Bluhm WF, Merino-Ott JC, Townsend-Merino W, Zhang Q, Knezevich C, Xie L, Chen L, Feng Z, Green RK, Flippen-Anderson JL, Westbrook J, Berman HM, Bourne PE. The RCSB Protein Databa Bank: A redesigned query system and relational database based on the mmCIF schema Nucleic Acids Research. 33: D233-D237. PMID 15608185 DOI: 10.1093/Nar/Gki057 |
0.392 |
|
| 2005 |
Pajon A, Ionides J, Diprose J, Fillon J, Fogh R, Ashton AW, Berman H, Boucher W, Cygler M, Deleury E, Esnouf R, Janin J, Kim R, Krimm I, Lawson CL, et al. Design of a data model for developing laboratory information management and analysis systems for protein production. Proteins. 58: 278-84. PMID 15562521 DOI: 10.1002/Prot.20303 |
0.331 |
|
| 2005 |
Westbrook J, Ito N, Nakamura H, Henrick K, Berman HM. PDBML: The representation of archival macromolecular structure data in XML Bioinformatics. 21: 988-992. PMID 15509603 DOI: 10.1093/Bioinformatics/Bti082 |
0.365 |
|
| 2005 |
Dutta S, Burkhardt K, Bluhm WF, Berman HM. Using the Tools and Resources of the RCSB Protein Data Bank Current Protocols in Bioinformatics. 9: 1.9.1-1.9.40. DOI: 10.1002/0471250953.Bi0109S9 |
0.467 |
|
| 2004 |
Yang H, Guranovic V, Dutta S, Feng Z, Berman HM, Westbrook JD. Automated and accurate deposition of structures solved by X-ray diffraction to the Protein Data Bank Acta Crystallographica Section D: Biological Crystallography. 60: 1833-1839. PMID 15388930 DOI: 10.1107/S0907444904019419 |
0.346 |
|
| 2004 |
Berman HM, Westbrook JD. The impact of structural genomics on the Protein Data Bank American Journal of Pharmacogenomics. 4: 247-252. PMID 15287818 DOI: 10.2165/00129785-200404040-00004 |
0.403 |
|
| 2004 |
Lawson CL, Benoff B, Berger T, Berman HM, Carey J. E. coli trp repressor forms a domain-swapped array in aqueous alcohol Structure. 12: 1099-1108. PMID 15274929 DOI: 10.1016/J.Str.2004.03.019 |
0.323 |
|
| 2004 |
Bourne PE, Westbrook J, Berman HM. The Protein Data Bank and lessons in data management. Briefings in Bioinformatics. 5: 23-30. PMID 15153303 DOI: 10.1093/Bib/5.1.23 |
0.353 |
|
| 2004 |
Chen L, Oughtred R, Berman HM, Westbrook J. TargetDB: A target registration database for structural genomics projects Bioinformatics. 20: 2860-2862. PMID 15130928 DOI: 10.1093/Bioinformatics/Bth300 |
0.341 |
|
| 2004 |
Feng Z, Chen L, Maddula H, Akcan O, Oughtred R, Berman HM, Westbrook J. Ligand Depot: A data warehouse for ligands bound to macromolecules Bioinformatics. 20: 2153-2155. PMID 15059838 DOI: 10.1093/Bioinformatics/Bth214 |
0.361 |
|
| 2004 |
Schneider B, Morávek Z, Berman HM. RNA conformational classes Nucleic Acids Research. 32: 1666-1677. PMID 15016910 DOI: 10.1093/Nar/Gkh333 |
0.542 |
|
| 2004 |
Bourne PE, Addess KJ, Bluhm WF, Chen L, Deshpande N, Feng Z, Fleri W, Green R, Merino-Ott JC, Townsend-Merino W, Weissig H, Westbrook J, Berman HM. The distribution and query systems of the RCSB Protein Data Bank Nucleic Acids Research. 32: D223-D225. PMID 14681399 DOI: 10.1093/Nar/Gkh096 |
0.345 |
|
| 2004 |
Berman H, Henrick K, Nakamura H. Announcing the worldwide Protein Data Bank. Nature Structural Biology. 10: 980. PMID 14634627 DOI: 10.1038/Nsb1203-980 |
0.397 |
|
| 2004 |
Berman H, Bourne P, Westbrook J. The Protein Data Bank: A Case Study in Management of Community Data Current Proteomics. 1: 49-57. DOI: 10.2174/1570164043488252 |
0.407 |
|
| 2003 |
Westbrook J, Feng Z, Burkhardt K, Berman HM. Validation of Protein Structures for Protein Data Bank Methods in Enzymology. 374: 370-385. PMID 14696382 DOI: 10.1016/S0076-6879(03)74017-8 |
0.422 |
|
| 2003 |
Yang H, Jossinet F, Leontis N, Chen L, Westbrook J, Berman H, Westhof E. Tools for the automatic identification and classification of RNA base pairs. Nucleic Acids Research. 31: 3450-60. PMID 12824344 DOI: 10.1093/Nar/Gkg529 |
0.366 |
|
| 2003 |
McLaughlin WA, Berman HM. Statistical models for discerning protein structures containing the DNA-binding helix-turn-helix motif Journal of Molecular Biology. 330: 43-55. PMID 12818201 DOI: 10.1016/S0022-2836(03)00532-1 |
0.403 |
|
| 2003 |
Berman HM, Westbrook J, Feng Z, Iype L, Schneider B, Zardecki C. The nucleic acid database. Methods of Biochemical Analysis. 44: 199-216. PMID 12688301 DOI: 10.1107/97809553602060000897 |
0.606 |
|
| 2003 |
Neidle S, Schneider B, Berman HM. Fundamentals of DNA and RNA structure. Methods of Biochemical Analysis. 44: 41-73. PMID 12647381 DOI: 10.1002/0471721204.Ch3 |
0.572 |
|
| 2003 |
Westbrook J, Feng Z, Chen L, Yang H, Berman HM. The Protein Data Bank and structural genomics Nucleic Acids Research. 31: 489-491. PMID 12520059 DOI: 10.1093/Nar/Gkg068 |
0.397 |
|
| 2003 |
Berman HM. Introduction to macromolecular crystallography: McPherson, A. Biochemistry and Molecular Biology Education. 31: 155a-156. DOI: 10.1002/Bmb.2003.494031020188 |
0.338 |
|
| 2002 |
Benoff B, Yang H, Lawson CL, Parkinson G, Liu J, Blatter E, Ebright YW, Berman HM, Ebright RH. Structural basis of transcription activation: The CAP-αCTD-DNA complex Science. 297: 1562-1566. PMID 12202833 DOI: 10.1126/Science.1076376 |
0.362 |
|
| 2002 |
Berman HM, Battistuz T, Bhat TN, Bluhm WF, Bourne PE, Burkhardt K, Feng Z, Gilliland GL, Iype L, Jain S, Fagan P, Marvin J, Padilla D, Ravichandran V, Schneider B, et al. The Protein Data Bank. Acta Crystallographica. Section D, Biological Crystallography. 58: 899-907. PMID 12037327 DOI: 10.1107/S0907444902003451 |
0.605 |
|
| 2002 |
Berman HM, Westbrook J, Feng Z, Iype L, Schneider B, Zardecki C. The Nucleic Acid Database. Acta Crystallographica. Section D, Biological Crystallography. 58: 889-98. PMID 12037326 DOI: 10.1107/S0907444902003487 |
0.596 |
|
| 2002 |
Westbrook J, Feng Z, Jain S, Bhat TN, Thanki N, Ravichandran V, Gilliland GL, Bluhm W, Weissig H, Greer DS, Bourne PE, Berman HM. The protein data bank: Unifying the archive Nucleic Acids Research. 30: 245-248. PMID 11752306 DOI: 10.1093/Nar/30.1.245 |
0.359 |
|
| 2002 |
Berman HM, Goodsell DS, Bourne PE. Protein Structures: From Famine to Feast American Scientist. 90: 350-359. DOI: 10.1511/2002.27.785 |
0.385 |
|
| 2002 |
Schneider B, Berman HM, Feng Z, Iype L, Lu X, Olson WK, Westbrook J, Yang H, Zardecki C. The new Nucleic Acid Database Atlas Acta Crystallographica Section a Foundations of Crystallography. 58: c272-c272. DOI: 10.1107/S0108767302095879 |
0.538 |
|
| 2001 |
Chen S, Vojtechovsky J, Parkinson GN, Ebright RH, Berman HM. Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA Complex: Alteration of DNA binding specificity through alteration of DNA kinking Journal of Molecular Biology. 314: 75-82. PMID 11724533 DOI: 10.1006/Jmbi.2001.5090 |
0.305 |
|
| 2001 |
Olson WK, Bansal M, Burley SK, Dickerson RE, Gerstein M, Harvey SC, Heinemann U, Lu XJ, Neidle S, Shakked Z, Sklenar H, Suzuki M, Tung CS, Westhof E, Wolberger C, ... Berman HM, et al. A standard reference frame for the description of nucleic acid base-pair geometry. Journal of Molecular Biology. 313: 229-37. PMID 11601858 DOI: 10.1006/Jmbi.2001.4987 |
0.413 |
|
| 2001 |
Kramer RZ, Bella J, Brodsky B, Berman HM. The crystal and molecular structure of a collagen-like peptide with a biologically relevant sequence. Journal of Molecular Biology. 311: 131-47. PMID 11469863 DOI: 10.1006/Jmbi.2001.4849 |
0.341 |
|
| 2001 |
Das U, Chen S, Fuxreiter M, Vaguine AA, Richelle J, Berman HM, Wodak SJ. Checking nucleic acid crystal structures. Acta Crystallographica. Section D, Biological Crystallography. 57: 813-28. PMID 11375501 DOI: 10.1107/S0907444901003936 |
0.389 |
|
| 2001 |
Jones S, Daley DT, Luscombe NM, Berman HM, Thornton JM. Protein-RNA interactions: a structural analysis. Nucleic Acids Research. 29: 943-54. PMID 11160927 DOI: 10.1093/Nar/29.4.943 |
0.357 |
|
| 2001 |
Bhat TN, Bourne P, Feng Z, Gilliland G, Jain S, Ravichandran V, Schneider B, Schneider K, Thanki N, Weissig H, Westbrook J, Berman HM. The PDB data uniformity project. Nucleic Acids Research. 29: 214-8. PMID 11125095 DOI: 10.1093/Nar/29.1.214 |
0.576 |
|
| 2000 |
Luscombe NM, Austin SE, Berman HM, Thornton JM. An overview of the structures of protein-DNA complexes. Genome Biology. 1: REVIEWS001. PMID 11104519 DOI: 10.1186/Gb-2000-1-1-Reviews001 |
0.408 |
|
| 2000 |
Berman HM, Bhat TN, Bourne PE, Feng Z, Gilliland G, Weissig H, Westbrook J. The Protein Data Bank and the challenge of structural genomics. Nature Structural Biology. 7: 957-9. PMID 11103999 DOI: 10.1038/80734 |
0.364 |
|
| 2000 |
Abola E, Bairoch A, Barker W, Beck S, Benson D, Berman H, Cantor C, Doubet S, Hubbard T, Jones TA, Kleywegt GJ, Kolaskar A, Kuik Av, Lesk AM, Mewes HW, et al. Quality control in databanks for molecular biology Bioessays. 22: 1024-1034. PMID 11056479 DOI: 10.1002/1521-1878(200011)22:11<1024::Aid-Bies9>3.0.Co;2-W |
0.342 |
|
| 2000 |
Kramer RZ, Venugopal MG, Bella J, Mayville P, Brodsky B, Berman HM. Staggered molecular packing in crystals of a collagen-like peptide with a single charged pair. Journal of Molecular Biology. 301: 1191-205. PMID 10966815 DOI: 10.1006/Jmbi.2000.4017 |
0.326 |
|
| 2000 |
Bella J, Berman HM. Integrin-collagen complex: a metal-glutamate handshake. Structure (London, England : 1993). 8: R121-6. PMID 10873865 DOI: 10.1016/S0969-2126(00)00153-2 |
0.31 |
|
| 2000 |
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Shindyalov IN, Bourne PE. The Protein Data Bank. Nucleic Acids Research. 28: 235-42. PMID 10592235 DOI: 10.1093/Nar/28.1.235 |
0.377 |
|
| 1999 |
Kramer RZ, Bella J, Mayville P, Brodsky B, Berman HM. Sequence dependent conformational variations of collagen triple-helical structure. Nature Structural Biology. 6: 454-7. PMID 10331873 DOI: 10.1038/8259 |
0.368 |
|
| 1999 |
Jones S, van Heyningen P, Berman HM, Thornton JM. Protein-DNA interactions: A structural analysis. Journal of Molecular Biology. 287: 877-96. PMID 10222198 DOI: 10.1006/Jmbi.1999.2659 |
0.372 |
|
| 1999 |
Berman HM. The past and future of structure databases. Current Opinion in Biotechnology. 10: 76-80. PMID 10047508 DOI: 10.1016/S0958-1669(99)80014-7 |
0.421 |
|
| 1999 |
Clowney L, Westbrook JD, Berman HM. CIF applications. XI. A La Mode: A ligand and monomer object data environment. I. Automated construction of mmCIF monomer and ligand models Journal of Applied Crystallography. 32: 125-133. DOI: 10.1107/S0021889898005160 |
0.35 |
|
| 1998 |
Berman HM, Zardecki C, Westbrook J. The Nucleic Acid Database: A resource for nucleic acid science. Acta Crystallographica. Section D, Biological Crystallography. 54: 1095-104. PMID 10089485 DOI: 10.1107/S0907444998007926 |
0.335 |
|
| 1998 |
Jain SC, Shinde U, Li Y, Inouye M, Berman HM. The crystal structure of an autoprocessed Ser221Cys-subtilisin E-propeptide complex at 2.0 A resolution. Journal of Molecular Biology. 284: 137-44. PMID 9811547 DOI: 10.1006/Jmbi.1998.2161 |
0.301 |
|
| 1998 |
Schneider B, Patel K, Berman HM. Hydration of the phosphate group in double-helical DNA. Biophysical Journal. 75: 2422-34. PMID 9788937 DOI: 10.1016/S0006-3495(98)77686-6 |
0.568 |
|
| 1998 |
Woda J, Schneider B, Patel K, Mistry K, Berman HM. An analysis of the relationship between hydration and protein-DNA interactions. Biophysical Journal. 75: 2170-7. PMID 9788911 DOI: 10.1016/S0006-3495(98)77660-X |
0.582 |
|
| 1998 |
Kramer RZ, Vitagliano L, Bella J, Berisio R, Mazzarella L, Brodsky B, Zagari A, Berman HM. X-ray crystallographic determination of a collagen-like peptide with the repeating sequence (Pro-Pro-Gly). Journal of Molecular Biology. 280: 623-38. PMID 9677293 DOI: 10.1006/Jmbi.1998.1881 |
0.373 |
|
| 1997 |
Schneider B, Neidle S, Berman HM. Conformations of the sugar-phosphate backbone in helical DNA crystal structures. Biopolymers. 42: 113-24. PMID 19350745 DOI: 10.1002/(Sici)1097-0282(199707)42:1<113::Aid-Bip10>3.0.Co;2-O |
0.598 |
|
| 1997 |
Liu J, Lynch PA, Chien CY, Montelione GT, Krug RM, Berman HM. Crystal structure of the unique RNA-binding domain of the influenza virus NS1 protein. Nature Structural Biology. 4: 896-9. PMID 9360602 DOI: 10.1038/Nsb1197-896 |
0.316 |
|
| 1997 |
Berman HM, Gelbin A, Westbrook J. Nucleic acid crystallography: a view from the nucleic acid database. Progress in Biophysics and Molecular Biology. 66: 255-88. PMID 9284453 DOI: 10.1016/S0079-6107(97)00019-9 |
0.479 |
|
| 1997 |
Berman HM. Crystal studies of B-DNA: The answers and the questions Biopolymers - Nucleic Acid Sciences Section. 44: 23-44. PMID 9097732 DOI: 10.1002/(Sici)1097-0282(1997)44:1<23::Aid-Bip3>3.0.Co;2-1 |
0.372 |
|
| 1997 |
Parkinson G, Wilson C, Gunasekera A, Ebright YW, Ebright RE, Berman HM. Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface. Journal of Molecular Biology. 260: 395-408. DOI: 10.2210/Pdb1J59/Pdb |
0.366 |
|
| 1997 |
Bourne PE, Berman HM, McMahon B, Watenpaugh KD, Westbrook JD, Fitzgerald PMD. Macromolecular crystallographic information file Methods in Enzymology. 277: 571-590. DOI: 10.1016/S0076-6879(97)77032-0 |
0.381 |
|
| 1996 |
Berman HM, Gelbin A, Clowney L, Hsieh SH, Zardecki C, Westbrook J. The Nucleic Acid Database: Present and Future. Journal of Research of the National Institute of Standards and Technology. 101: 243-257. PMID 27805162 DOI: 10.6028/Jres.101.026 |
0.374 |
|
| 1996 |
Parkinson G, Vojtechovsky J, Clowney L, Brünger AT, Berman HM. New parameters for the refinement of nucleic acid-containing structures. Acta Crystallographica. Section D, Biological Crystallography. 52: 57-64. PMID 15299726 DOI: 10.1107/S0907444995011115 |
0.424 |
|
| 1996 |
Martínez-Hackert E, Harlocker S, Inouye M, Berman HM, Stock AM. Crystallization, x-ray studies, and site-directed cysteine mutagenesis of the DNA-binding domain of OmpR Protein Science. 5: 1429-1433. PMID 8819176 DOI: 10.1002/Pro.5560050722 |
0.303 |
|
| 1996 |
Parkinson G, Wilson C, Gunasekera A, Ebright YW, Ebright RE, Berman HM. Structure of the CAP-DNA complex at 2.5 Å resolution: A complete picture of the protein-DNA interface Journal of Molecular Biology. 260: 395-408. PMID 8757802 DOI: 10.1006/Jmbi.1996.0409 |
0.369 |
|
| 1996 |
Bella J, Brodsky B, Berman HM. Disrupted collagen architecture in the crystal structure of a triple-helical peptide with a Gly → Ala substitution Connective Tissue Research. 35: 455-460. DOI: 10.3109/03008209609029218 |
0.34 |
|
| 1996 |
Gelbin A, Clowney L, Hsieh S, Zardecki C, Westbrook J, Berman HM. Surveying and classifying nucleic acid structures Acta Crystallographica Section a Foundations of Crystallography. 52: C149-C149. DOI: 10.1107/S0108767396093294 |
0.38 |
|
| 1996 |
Martínez-Hackert E, Berman H, Stock A. DNA-binding domain of OmpR, a difficult structure determination Acta Crystallographica Section a Foundations of Crystallography. 52: C157-C157. DOI: 10.1107/S0108767396092951 |
0.329 |
|
| 1996 |
Parkinson GN, Schneider B, Vojtechovsky J, Ebright RH, Berman HM. Refinement strategies for protein–nucleic acid complexes Acta Crystallographica Section a Foundations of Crystallography. 52: C158-C158. DOI: 10.1107/S0108767396092926 |
0.519 |
|
| 1996 |
Gelbin A, Schneider B, Clowney L, Hsieh SH, Olson WK, Berman HM. Geometric parameters in nucleic acids: Sugar and phosphate constituents Journal of the American Chemical Society. 118: 519-529. DOI: 10.1021/Ja9528846 |
0.6 |
|
| 1996 |
Clowney L, Jain SC, Srinivasan AR, Westbrook J, Olson WK, Berman HM. Geometric parameters in nucleic acids: Nitrogenous bases Journal of the American Chemical Society. 118: 509-518. DOI: 10.1021/Ja952883D |
0.399 |
|
| 1995 |
Sussman JL, Berman HM. New guidelines for deposition of nucleic acid structures Structure. 3: 1426. PMID 8747467 DOI: 10.1016/S0969-2126(01)00278-7 |
0.428 |
|
| 1995 |
Schneider B, Berman HM. Hydration of the DNA bases is local Biophysical Journal. 69: 2661-2669. PMID 8599672 DOI: 10.1016/S0006-3495(95)80136-0 |
0.592 |
|
| 1995 |
Bella J, Brodsky B, Berman HM. Hydration structure of a collagen peptide Structure. 3: 893-906. PMID 8535783 DOI: 10.1016/S0969-2126(01)00224-6 |
0.351 |
|
| 1995 |
Vojtechovsky J, Eaton MD, Gaffney B, Jones R, Berman HM. Structure of a new crystal form of a DNA dodecamer containing T.(O6Me)G base pairs. Biochemistry. 34: 16632-40. PMID 8527436 DOI: 10.1021/Bi00051A011 |
0.352 |
|
| 1995 |
Young MA, Ravishanker G, Beveridge DL, Berman HM. Analysis of local helix bending in crystal structures of DNA oligonucleotides and DNA-protein complexes. Biophysical Journal. 68: 2454-68. PMID 7647248 DOI: 10.1016/S0006-3495(95)80427-3 |
0.461 |
|
| 1995 |
Parkinson GN, Arvanitis GM, Lessinger L, Ginell SL, Jones R, Gaffney B, Berman HM. Crystal and molecular structure of a new Z-DNA crystal form: d[CGT(2-NH2-A)CG] and its platinated derivative Biochemistry. 34: 15487-15495. PMID 7492550 DOI: 10.2210/Pdb210D/Pdb |
0.394 |
|
| 1995 |
Spink N, Nunn CM, Vojtechovsky J, Berman HM, Neidle S. Crystal structure of a DNA decamer showing a novel pseudo four-way helix-helix junction Proceedings of the National Academy of Sciences of the United States of America. 92: 10767-10771. PMID 7479880 DOI: 10.1073/Pnas.92.23.10767 |
0.364 |
|
| 1994 |
Parkinson GN, Wu Y, Fan P, Kohn J, Baum J, Berman HM. Crystal structure and NMR conformation of a cyclic pseudotetrapeptide containing urethane backbone linkages Biopolymers. 34: 403-414. PMID 8161712 DOI: 10.1002/Bip.360340312 |
0.358 |
|
| 1994 |
Berman HM. Crystal structure of a mispaired dodecamer, d(CGAGAATTC(O6Me)GCG)2, containing a carcinogenic O6-methylguanine Biochemistry. 33: 3487-3493. PMID 8142345 DOI: 10.1021/Bi00178A004 |
0.381 |
|
| 1994 |
Bella J, Eaton M, Brodsky B, Berman HM. Crystal and molecular structure of a collagen-like peptide at 1.9 Å resolution Science. 266: 75-81. PMID 7695699 DOI: 10.1126/Science.7695699 |
0.358 |
|
| 1994 |
Berman HM. Hydration of DNA: take 2 Current Opinion in Structural Biology. 4: 345-350. DOI: 10.1016/S0959-440X(94)90102-3 |
0.343 |
|
| 1993 |
Camacho NP, Smith DR, Goldman A, Schneider B, Green D, Young PR, Berman HM. Structure of an interleukin-1β mutant with reduced bioactivity shows multiple subtle changes in conformation that affect protein-protein recognition Biochemistry. 32: 8749-8757. PMID 8364024 DOI: 10.1021/Bi00085A005 |
0.546 |
|
| 1993 |
Schneider B, Cohen DM, Schleifer L, Srinivasan AR, Olson WK, Berman HM. A systematic method for studying the spatial distribution of water molecules around nucleic acid bases. Biophysical Journal. 65: 2291-303. PMID 8312469 DOI: 10.1016/S0006-3495(93)81306-7 |
0.587 |
|
| 1992 |
Schneider B, Ginell SL, Berman HM. Low temperature structures of dCpG-proflavine: Conformational and hydration effects Biophysical Journal. 63: 1572-1578. PMID 1489914 DOI: 10.1016/S0006-3495(92)81755-1 |
0.551 |
|
| 1992 |
Berman HM, Sussman JL, Joshua-Tor L, Revich GG, Ripley LS. A structural model for sequence-specific proflavin-dna interactions during in vitro frameshift mutagenesis Journal of Biomolecular Structure and Dynamics. 10: 317-331. PMID 1466812 DOI: 10.1080/07391102.1992.10508650 |
0.348 |
|
| 1992 |
Schneider B, Cohen D, Berman HM. Hydration of DNA bases: Analysis of crystallographic data Biopolymers. 32: 725-750. PMID 1391627 DOI: 10.1002/Bip.360320703 |
0.599 |
|
| 1992 |
Schneider B, Ginell SL, Jones R, Gaffney B, Berman HM. Crystal and molecular structure of a DNA fragment containing a 2-aminoadenine modification: The relationship between conformation, packing, and hydration in Z-DNA hexamers Biochemistry. 31: 9622-9628. PMID 1390739 DOI: 10.1021/Bi00155A014 |
0.617 |
|
| 1992 |
Berman HM, Olson WK, Beveridge DL, Westbrook J, Gelbin A, Demeny T, Hsieh SH, Srinivasan AR, Schneider B. The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids. Biophysical Journal. 63: 751-9. PMID 1384741 DOI: 10.1016/S0006-3495(92)81649-1 |
0.582 |
|
| 1991 |
Narayana N, Ginell SL, Russu IM, Berman HM. Crystal and molecular structure of a DNA fragment: d(CGTGAATTCACG). Biochemistry. 30: 4449-55. PMID 2021634 DOI: 10.1021/Bi00232A011 |
0.359 |
|
| 1991 |
Berman HM. Hydration of DNA Current Opinion in Structural Biology. 1: 423-427. DOI: 10.1016/0959-440X(91)90042-R |
0.441 |
|
| 1990 |
Ginell SL, Kuzmich S, Jones RA, Berman HM. Crystal and molecular structure of a DNA duplex containing the carcinogenic lesion O6-methylguanine Biochemistry. 29: 10461-10465. PMID 2271657 DOI: 10.1021/Bi00498A005 |
0.37 |
|
| 1988 |
Ginell S, Lessinger L, Berman HM. The crystal and molecular structure of the anticancer drug actinomycin D - Some explanations for its unusual properties Biopolymers. 27: 834-864. PMID 3382721 DOI: 10.1002/Bip.360270511 |
0.355 |
|
| 1988 |
Berman HM, Sowri A, Ginel S, Beveridge D. A systematic study of patterns of hydrationin nucleic acids:(i) guanine and cytosine Journal of Biomolecular Structure and Dynamics. 5: 1101-1110. PMID 3271499 DOI: 10.1080/07391102.1988.10506451 |
0.392 |
|
| 1988 |
Giranda VL, Berman HM, Schramm VL. Crystal structure of formycin 5′-phosphate: An explanation for its tight binding to AMP nucleosidase Biochemistry. 27: 5813-5818. PMID 3179278 DOI: 10.1021/Bi00415A062 |
0.349 |
|
| 1988 |
Neidle S, Pearl LH, Herzyk P, Berman HM. A molecular model for proflavine-DNA intercalation Nucleic Acids Research. 16: 8999-9015. PMID 3174439 DOI: 10.1093/Nar/16.18.8999 |
0.339 |
|
| 1987 |
Afshar C, Berman HM, Sawzik P, Lessinger L, Lim BB, Hosmane RS. Structure of a rearrangement product: 1-methyl-3-(5-amino-1-benzylimidazol-4-yl)-1,2,4-triazole, C13H14N6 Journal of Crystallographic and Spectroscopic Research. 17: 533-543. DOI: 10.1007/Bf01180325 |
0.324 |
|
| 1986 |
Berman HM. Hydration of nucleic acid crystals Annals of the New York Academy of Sciences. 482: 166-178. PMID 2436516 DOI: 10.1111/J.1749-6632.1986.Tb20948.X |
0.42 |
|
| 1986 |
Goldstein BM, Barton JK, Berman HM. Crystal and molecular structure of a chiral-specific DNA-binding agent: tris(4,7-diphenyl-1,10-phenanthroline)ruthenium(II) Inorganic Chemistry. 25: 842-847. DOI: 10.1002/Chin.198628304 |
0.351 |
|
| 1985 |
Goldstein BM, Takusagawa F, Berman HM, Srivastava PC, Robins RK. Structural studies of a new antitumor and antiviral agent: Selenazofurin and its a anomer Journal of the American Chemical Society. 107: 1394-1400. DOI: 10.1002/Chin.198529082 |
0.314 |
|
| 1983 |
Mezei M, Beveridge DL, Berman HM, Goodfellow JM, Finney JL, Neidle S. Monte Carlo studies on water in the dCpG/proflavin crystal hydrate. Journal of Biomolecular Structure & Dynamics. 1: 287-97. PMID 6400875 DOI: 10.1080/07391102.1983.10507440 |
0.316 |
|
| 1983 |
Aggarwal A, Islam SA, Kuroda R, Sanderson MR, Neidle S, Berman HM. The structure of the ribodinucleoside monophosphate guanylyl-3',5'-cytidine as its ammonium octahydrate salt Acta Crystallographica Section B Structural Science. 39: 98-104. DOI: 10.1107/S0108768183002074 |
0.366 |
|
| 1983 |
Goldstein BM, Takusagawa F, Berman HM. Structural studies of a new antitumor agent: Tiazofurin and its inactive analogues Journal of the American Chemical Society. 105: 7416-7422. DOI: 10.1002/Chin.198412060 |
0.319 |
|
| 1982 |
Takusagawa F, Dabrow M, Neidle S, Berman HM. The structure of a pseudo intercalated complex between actinomycin and the DNA binding sequence d(GpC) Nature. 296: 466-469. PMID 7063043 DOI: 10.1038/296466A0 |
0.368 |
|
| 1982 |
Shieh HS, Berman HM, Neidle S, Taylor G, Sanderson M. The structure of a hydrated 1:2 complex of adenylyl(3'-5')adenosine–proflavine hemisulphate Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 38: 523-531. DOI: 10.1107/S0567740882003318 |
0.373 |
|
| 1980 |
Neidle S, Berman HM, Shieh HS. Highly structured water network in crystals of a deoxydinucleoside-drug complex Nature. 288: 129-133. PMID 7432511 DOI: 10.1038/288129A0 |
0.358 |
|
| 1980 |
Shieh HS, Berman HM, Dabrow M, Neidle S. The structure of drug-deoxydinucleoside phosphate complex; generalized conformational behavior of intercalation complexes with RNA and DNA fragments Nucleic Acids Research. 8: 85-98. PMID 7355129 DOI: 10.1093/Nar/8.1.85 |
0.364 |
|
| 1979 |
Berman HM, Neidle S, Zimmer C, Thrum H. Netropsin, a DNA-binding oligopeptide structural and binding studies. Biochimica Et Biophysica Acta. 561: 124-31. PMID 420847 DOI: 10.1016/0005-2787(79)90496-9 |
0.34 |
|
| 1979 |
Berman HM, Stallings W, Carrell HL, Glusker JP, Neidle S, Taylor G, Achari A. Molecular and crystal structure of an intercalation complex: Proflavine-cytidylyl-(3?,5?)-guanosine Biopolymers. 18: 2405-2429. DOI: 10.1002/Bip.1979.360181004 |
0.378 |
|
| 1978 |
Berman HM, Marcu D, Narayanan P. Modified bases in tRNA: the structures of 5-carbamoylmethyl- and 5-carboxymethyl uridine. Nucleic Acids Research. 5: 893-903. PMID 643621 DOI: 10.1093/Nar/5.3.893 |
0.382 |
|
| 1978 |
Berman HM, Neidle S, Stodola RK. Drug-nucleic acid interactions: conformational flexibility at the intercalation site. Proceedings of the National Academy of Sciences of the United States of America. 75: 828-32. PMID 273246 DOI: 10.1073/Pnas.75.2.828 |
0.333 |
|
| 1977 |
Neidle S, Achari A, Taylor GL, Berman HM, Carrell HL, Glusker JP, Stallings WC. Structure of a dinucleoside phosphate-drug complex as model for nucleic acid-drug interaction Nature. 269: 304-307. PMID 904684 DOI: 10.1038/269304A0 |
0.353 |
|
| 1977 |
Langs DA, Duax WL, Carrell HL, Berman H, Caspi E. Crystal structure of tetrahymanol hemihydrate Journal of Organic Chemistry. 42: 2134-2137. PMID 864553 DOI: 10.1021/Jo00432A025 |
0.346 |
|
| 1977 |
Williams GJB, Varghese AJ, Berman HM. Model Compounds For Protein‐Nucleic Acid Interactions. 5. 5‐S‐Cysteinyluracil L Monohydrate, A Photoaddition Product Between An Amino Acid And Pyrimidine Base Journal of the American Chemical Society. 99: 3150-3154. PMID 850048 DOI: 10.1021/Ja00451A047 |
0.324 |
|
| 1977 |
Glusker JP, Carrell HL, Berman HM, Gallen B, Peck RM. Alkylation of a tripeptide by a carcinogen: the crystal structures of sarcosylglycylglycine, 9-methyl-10-chloromethylanthracene, and their reaction product. Journal of the American Chemical Society. 99: 595-601. PMID 830695 DOI: 10.1002/Chin.197715340 |
0.307 |
|
| 1977 |
Narayanan P, Berman HM, Ramirez F, Marecek JF, Chaw YF, Prasad VAV. Crystal and molecular structure of oxyphosphoranes. 9. The spiropentaoxyphosphorane, 2-phenoxy-2,2-o-phenylenemethyl)-2,2-dihydro-1,3,2-dioxaphospholene Journal of the American Chemical Society. 99: 3336-3342. DOI: 10.1021/Ja00452A024 |
0.33 |
|
| 1977 |
LANGS DA, DUAX WL, CARRELL HL, BERMAN H, CASPI E. ChemInform Abstract: CRYSTAL STRUCTURE OF TETRAHYMANOL HEMIHYDRATE Chemischer Informationsdienst. 8: no-no. DOI: 10.1002/Chin.197741372 |
0.372 |
|
| 1977 |
NARAYANAN P, BERMAN HM, ROUSSEAU R. ChemInform Abstract: MODEL COMPOUNDS FOR PROTEIN NUCLEIC ACID INTERACTIONS. 4. SYNTHESIS AND STRUCTURE OF A NUCLEOSIDE DIPEPTIDE, N-(9-β-D-RIBOFURANOSYLPURIN-6-YL)GLYCYL-L-ALANINE-WATER (1 1.5) Chemischer Informationsdienst. 8: no-no. DOI: 10.1002/Chin.197713364 |
0.321 |
|
| 1976 |
Berman HM, Zacharias DE, Carrell HL, Varghese AJ. Alpha-S-cysteinylthymine: a model for protein-nucleic acid cross-linking. Biochemistry. 15: 463-7. PMID 1252404 DOI: 10.1021/Bi00648A002 |
0.351 |
|
| 1976 |
Stein MT, Berman HM, Varghese AJ. The crystal structure of a uracil-acetone photoaddition product. Biochimica Et Biophysica Acta. 407: 377-83. PMID 1182180 DOI: 10.1016/0005-2787(75)90289-0 |
0.337 |
|
| 1976 |
Narayanan P, Berman HM, Rousseau R. Model compounds for protein nucleic acid interactions. 3. Synthesis and structure of a nucleoside dipeptide, N-(9-β-D-ribofuranosylpurin-6-yl)glycyl-L-alanine sesquihydrate Journal of the American Chemical Society. 98: 8472-8475. PMID 993531 DOI: 10.1021/Ja00442A026 |
0.338 |
|
| 1976 |
Obendorf SK, Pickworth Glusker J, Hansen PR, Berman HM, Carrell HL. Aggregation of acridine orange: crystal structure of acridine orange tetrachlorozincate 2C17H19N3-2HCl-ZnCl2-CH3COOH. Bioinorganic Chemistry. 6: 29-44. PMID 953044 DOI: 10.1016/S0006-3061(00)80048-4 |
0.378 |
|
| 1975 |
Narayanan P, Berman HM. A crystallographic determination of a chemical structure: 6-amino-10-(β-d-ribofuranosylamino)pyrimido-[5,4-d]pyrimidine, an example of an unusual d-ribose conformation Carbohydrate Research. 44: 169-180. PMID 1203903 DOI: 10.1016/S0008-6215(00)84161-0 |
0.338 |
|
| 1973 |
Berman HM, Hamilton WC, Rousseau RJ. Crystal structure of an antiviral agent 5-(N-(L-phenylalanyl)amino) uridine. Biochemistry. 12: 1809-14. PMID 4699239 DOI: 10.1021/Bi00733A023 |
0.323 |
|
| 1973 |
Berman HM, Carrell HL, Glusker JP. Refinement of the structures of potassium hydrogen isocitrate lactone Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 29: 1163-1165. DOI: 10.1107/S0567740873004103 |
0.342 |
|
| 1973 |
Kim S, Berman HM, Seeman NC, Newton MD. Seven basic conformations of nucleic acid structural units Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 29: 703-710. DOI: 10.1107/S0567740873003201 |
0.573 |
|
| 1972 |
Sussman JL, Seeman NC, Kim SH, Berman HM. Crystal structure of a naturally occurring dinucleoside phoaphate: uridylyl 3',5'-adenosine phosphate model for RNA chain folding. Journal of Molecular Biology. 66: 403-21. PMID 5037021 DOI: 10.1016/0022-2836(72)90423-8 |
0.586 |
|
| 1972 |
Seeman NC, Sussman JL, Berman HM, Kim S. Solution of UpA Structure Science. 177: 294-294. DOI: 10.1126/Science.177.4046.294-A |
0.514 |
|
| 1972 |
Chomyn A, Glusker JP, Berman HM, Carrell HL. The crystal structure of 10-chloromethyl-2,3,9-trimethylanthracene Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 28: 3512-3517. DOI: 10.1107/S0567740872008271 |
0.37 |
|
| 1972 |
Dargay JM, Berman HM, Carrell HL, Glusker JP. The crystal structure of potassium dihydrogen trans-aconitate Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 28: 1533-1539. DOI: 10.1107/S0567740872004546 |
0.37 |
|
| 1972 |
Berman HM, Glusker JP. The crystal structure of ICR-170-OH an analogue of an antitumor agent and mutagen Acta Crystallographica Section B. 28: 590-596. DOI: 10.1107/S0567740872002808 |
0.349 |
|
| 1971 |
Berman HM, Rosenstein RD, Southwick J. The crystal structure of γ-D-gulonolactone Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 27: 7-10. DOI: 10.1107/S0567740871001638 |
0.352 |
|
| 1970 |
Berman HM. The crystal structure of a trisaccharide, raffinose pentahydrate. Acta Crystallographica. Section B: Structural Crystallography and Crystal Chemistry. 26: 290-9. PMID 5467313 DOI: 10.1107/S0567740870002273 |
0.371 |
|
| 1969 |
Berman HM, McGandy EL, Burgner JW, VanEtten RL. The crystal and molecular structure of L-azetidine-2-carboxylic acid. A naturally occurring homolog of proline. Journal of the American Chemical Society. 91: 6177-82. PMID 5823189 DOI: 10.1021/Ja01050A044 |
0.364 |
|
| 1969 |
Berman HM, Rosenstein RD. The crystal structure of galactitol. Acta Crystallographica. Section B: Structural Crystallography and Crystal Chemistry. 24: 435-41. PMID 5756977 DOI: 10.1107/S0567740868002529 |
0.37 |
|
| 1968 |
Berman HM, Jeffrey GA, Rosenstein RD. The crystal structures of the alpha and beta forms of D-mannitol. Acta Crystallographica. Section B: Structural Crystallography and Crystal Chemistry. 24: 442-9. PMID 5756978 DOI: 10.1107/S0567740868002530 |
0.579 |
|
| 1968 |
Berman HM, Kim SH. The crystal structure of methyl α-D-glucopyranoside Acta Crystallographica Section B Structural Crystallography and Crystal Chemistry. 24: 897-904. DOI: 10.1107/S0567740868003389 |
0.322 |
|
| 1967 |
Berman H, Kim SH. A second determination of the structure of hydroxyurea Acta Crystallographica. 23: 180-181. PMID 6072865 DOI: 10.1107/S0365110X67002361 |
0.377 |
|
| 1967 |
Berman HM, Chu SS, Jeffrey GA. Anomeric bond-character in the pyranose sugars. Science (New York, N.Y.). 157: 1576-7. PMID 6038173 DOI: 10.1126/Science.157.3796.1576 |
0.558 |
|
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