H M Berman

Summary

Affiliation: Rutgers University
Country: USA

Publications

  1. doi request reprint How community has shaped the Protein Data Bank
    Helen M Berman
    RCSB PDB, Center for Integrative Proteomics Research and Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA 08854 Electronic address
    Structure 21:1485-91. 2013
  2. doi request reprint Trendspotting in the Protein Data Bank
    Helen M Berman
    Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854 8076, USA
    FEBS Lett 587:1036-45. 2013
  3. pmc The future of the protein data bank
    Helen M Berman
    RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854
    Biopolymers 99:218-22. 2013
  4. pmc Creating a community resource for protein science
    Helen M Berman
    Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
    Protein Sci 21:1587-96. 2012
  5. pmc The Protein Data Bank at 40: reflecting on the past to prepare for the future
    Helen M Berman
    RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    Structure 20:391-6. 2012
  6. pmc The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods
    Margaret J Gabanyi
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    J Struct Funct Genomics 12:45-54. 2011
  7. ncbi request reprint The need for dictionaries, ontologies, and controlled vocabularies
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
    OMICS 7:9-10. 2003
  8. pmc The cAMP binding domain: an ancient signaling module
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Proc Natl Acad Sci U S A 102:45-50. 2005
  9. pmc The protein structure initiative structural genomics knowledgebase
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    Nucleic Acids Res 37:D365-8. 2009
  10. ncbi request reprint The Protein Data Bank
    Helen M Berman
    RCSB, Department of Chemistry, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ, USA
    Acta Crystallogr D Biol Crystallogr 58:899-907. 2002

Research Grants

  1. BIOMOLECULAR STRUCTURE AND INTERACTIONS
    Helen Berman; Fiscal Year: 1999
  2. NUCLEIC ACID STRUCTURES AND INTERACTIONS
    Helen Berman; Fiscal Year: 1993
  3. BIOMOLECULAR STRUCTURE AND INTERACTIONS
    Helen Berman; Fiscal Year: 2002

Detail Information

Publications58

  1. doi request reprint How community has shaped the Protein Data Bank
    Helen M Berman
    RCSB PDB, Center for Integrative Proteomics Research and Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA 08854 Electronic address
    Structure 21:1485-91. 2013
    ..In this perspective, we describe the history of PDB and the many ways in which the community continues to shape the archive...
  2. doi request reprint Trendspotting in the Protein Data Bank
    Helen M Berman
    Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854 8076, USA
    FEBS Lett 587:1036-45. 2013
    ..Through analysis of the corpus of data, it is possible to identify trends that can be used to inform us abou the future of structural biology and to plan the best ways to improve the management of the ever-growing amount of PDB data...
  3. pmc The future of the protein data bank
    Helen M Berman
    RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854
    Biopolymers 99:218-22. 2013
    ..To support future developments in structural biology, the wwPDB partners are addressing organizational, scientific, and technical challenges. © 2012 Wiley Periodicals, Inc. Biopolymers 99: 218-222, 2013...
  4. pmc Creating a community resource for protein science
    Helen M Berman
    Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
    Protein Sci 21:1587-96. 2012
    ..Structure 2012;20:391-396) have given me an opportunity to reflect on the various components that have contributed to building a resource for protein science and to try to quantify the impact of having PDB data openly available...
  5. pmc The Protein Data Bank at 40: reflecting on the past to prepare for the future
    Helen M Berman
    RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    Structure 20:391-6. 2012
    ..PDB40's distinguished speakers highlighted four decades of innovation in structural biology, from the early era of structural determination to future directions for the field...
  6. pmc The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods
    Margaret J Gabanyi
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    J Struct Funct Genomics 12:45-54. 2011
    ....
  7. ncbi request reprint The need for dictionaries, ontologies, and controlled vocabularies
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers University, Piscataway, New Jersey 08854, USA
    OMICS 7:9-10. 2003
  8. pmc The cAMP binding domain: an ancient signaling module
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Proc Natl Acad Sci U S A 102:45-50. 2005
    ..The modified positioning of the helix in turn is recognized by a protein-binding event, completing the allostery...
  9. pmc The protein structure initiative structural genomics knowledgebase
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    Nucleic Acids Res 37:D365-8. 2009
    ..By making these resources freely available, the PSI SGKB serves as a bridge to connect the structural biology and the greater biomedical communities...
  10. ncbi request reprint The Protein Data Bank
    Helen M Berman
    RCSB, Department of Chemistry, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ, USA
    Acta Crystallogr D Biol Crystallogr 58:899-907. 2002
    ..The reader should come away with an understanding of the scope of the PDB and what is provided by the resource...
  11. ncbi request reprint The impact of structural genomics on the protein data bank
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
    Am J Pharmacogenomics 4:247-52. 2004
    ..The PDB has developed tools to facilitate the rapid deposition of data produced by the structural genomics initiatives and has created databases to track the progress of the work...
  12. ncbi request reprint Outcome of a workshop on archiving structural models of biological macromolecules
    Helen M Berman
    The Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
    Structure 14:1211-7. 2006
  13. pmc The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data
    Helen Berman
    RCSB Protein Data Bank, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Nucleic Acids Res 35:D301-3. 2007
    ..The wwPDB website at http://www.wwpdb.org/ provides information about services provided by the individual member organizations and about projects undertaken by the wwPDB...
  14. ncbi request reprint The Protein Data Bank: a historical perspective
    Helen M Berman
    Rutgers, The State University of New Jersey, USA
    Acta Crystallogr A 64:88-95. 2008
    ..The interplay of science, technology and attitudes about data sharing have all played a role in the growth of this resource...
  15. ncbi request reprint The Protein Data Bank and the challenge of structural genomics
    H M Berman
    Department of Chemistry, Rutgers, The State University of New Jersey, Piscataway 08854 8087, USA
    Nat Struct Biol 7:957-9. 2000
    ..The PDB has created systems for the processing, exchange, query, and distribution of data that will enable many aspects of high throughput structural genomics...
  16. pmc The Protein Data Bank
    H M Berman
    Research Collaboratory for Structural Bioinformatics RCSB, Rutgers University, Piscataway, NJ 08854 8087, USA
    Nucleic Acids Res 28:235-42. 2000
    ..This paper describes the goals of the PDB, the systems in place for data deposition and access, how to obtain further information, and near-term plans for the future development of the resource...
  17. ncbi request reprint The past and future of structure databases
    H M Berman
    Department of Chemistry Rutgers University 610 Taylor Road Piscataway NJ 08854 8087 USA
    Curr Opin Biotechnol 10:76-80. 1999
    ..Currently available are databases that classify molecules according to their overall structural characteristics or particular features of structures, as well as databases that focus on particular protein families in depth...
  18. ncbi request reprint The Nucleic Acid Database
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Acta Crystallogr D Biol Crystallogr 58:889-98. 2002
    ..The architecture and capabilities of the Nucleic Acid Database, as well as some of the research enabled by this resource, are presented in this article...
  19. ncbi request reprint 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
    S Chen
    Department of Chemistry and The Waksman Institute, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ, 08854 8087, USA
    J Mol Biol 314:75-82. 2001
    ..The Glu181-->Asp substitution does not eliminate hydrogen-bond formation with G:C(7), and thus does not eliminate direct-readout-based specificity for G:C(7)...
  20. ncbi request reprint Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface
    G Parkinson
    Department of Chemistry and The Waksman Institute, Rutgers University, New Brunswick, NJ 08855 0939, USA
    J Mol Biol 260:395-408. 1996
    ..In addition, the present resolution permits accurate definition of the kinked DNA conformation in the CAP-DNA complex...
  21. ncbi request reprint Automated and accurate deposition of structures solved by X-ray diffraction to the Protein Data Bank
    Huanwang Yang
    Protein Data Bank, Research Collaboratory for Structural Bioinformatics, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Acta Crystallogr D Biol Crystallogr 60:1833-9. 2004
    ..The options, procedures and tools for accurate and automated PDB data deposition are described here...
  22. ncbi request reprint Statistical models for discerning protein structures containing the DNA-binding helix-turn-helix motif
    William A McLaughlin
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway 08854 8087, USA
    J Mol Biol 330:43-55. 2003
    ....
  23. ncbi request reprint Structural basis of transcription activation: the CAP-alpha CTD-DNA complex
    Brian Benoff
    Waksman Institute and Department of Chemistry, Howard Hughes Medical Institute, Rutgers University, Piscataway, NJ 08854, USA
    Science 297:1562-6. 2002
    ..There are no large-scale conformational changes in CAP and alphaCTD, and the interface between CAP and alphaCTD is small. These findings are consistent with the proposal that activation involves a simple "recruitment" mechanism...
  24. pmc The Protein Data Bank: unifying the archive
    John Westbrook
    Rutgers, The State University of New Jersey, Department of Chemistry, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Nucleic Acids Res 30:245-8. 2002
    ..rcsb.org/pub/pdb/uniformity/data/mmCIF/). A utility application that converts the mmCIF data files to the PDB format (called CIFTr) has also been released to provide support for existing software...
  25. ncbi request reprint The Nucleic Acid Database: A resource for nucleic acid science
    H M Berman
    NDB, Department of Chemistry, Rutgers University, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Acta Crystallogr D Biol Crystallogr 54:1095-104. 1998
    ..Here the information content of the database as well as the query capabilities are described. A summary of how the technology developed by this project has been used to develop other macromolecular databases is given...
  26. ncbi request reprint Ligand Depot: a data warehouse for ligands bound to macromolecules
    Zukang Feng
    Protein Data Bank, Research Collaboratory for Structural Bioinformatics, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854, USA
    Bioinformatics 20:2153-5. 2004
    ..rutgers.edu/. Version 1.0 supports multiple operating systems including Windows, Unix, Linux and the Macintosh operating system. The current drawing tool works in Internet Explorer, Netscape and Mozilla on Windows, Unix and Linux...
  27. pmc The RCSB PDB information portal for structural genomics
    Andrei Kouranov
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Nucleic Acids Res 34:D302-5. 2006
    ..Functional coverage can be examined according to enzyme classification, gene ontology (biological process, cell component and molecular function) and disease...
  28. ncbi request reprint TargetDB: a target registration database for structural genomics projects
    Li Chen
    Research Collaboratory for Structural Bioinformatics, Protein Data Bank, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854, USA
    Bioinformatics 20:2860-2. 2004
    ..AVAILABILITY: TargetDB is available at http://targetdb.pdb.org/..
  29. pmc Catabolite activator protein: DNA binding and transcription activation
    Catherine L Lawson
    Department of Chemistry and Chemical Biology, Rutgers University, 610 Taylor Road, Piscataway, NJ 08854, USA
    Curr Opin Struct Biol 14:10-20. 2004
    ....
  30. doi request reprint Harnessing knowledge from structural genomics
    Helen M Berman
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    Structure 16:16-8. 2008
  31. pmc Representation of viruses in the remediated PDB archive
    Catherine L Lawson
    RCSB Protein Data Bank, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Acta Crystallogr D Biol Crystallogr . 2008
    ..Complete correct information for building full assemblies, subassemblies and crystal asymmetric units of all virus entries is now available in the remediated PDB archive...
  32. pmc Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA complex: recognition of pyrimidine-purine and purine-purine steps
    Andrew A Napoli
    Department of Chemistry and Chemical Biology and Waksman Institute Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA
    J Mol Biol 357:173-83. 2006
    ....
  33. doi request reprint Data deposition and annotation at the worldwide protein data bank
    Shuchismita Dutta
    Research Collaboratory for Structural Bioinformatics Protein Data Bank RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854 8087, USA
    Mol Biotechnol 42:1-13. 2009
    ..This chapter describes the tools and methods currently used for deposition, processing, and release of data in the PDB. References to future enhancements are also included...
  34. pmc Signatures of protein-DNA recognition in free DNA binding sites
    Jason W Locasale
    Department of Chemistry and Chemical Biology, Rutgers, State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854, USA
    J Mol Biol 386:1054-65. 2009
    ..Together, our findings show that crystal structures of free DNA binding sites provide new information about the nature of protein-DNA interactions and thus lend insights towards a structural code for DNA recognition...
  35. pmc E. coli trp repressor forms a domain-swapped array in aqueous alcohol
    Catherine L Lawson
    Rutgers University, Department of Chemistry and Chemical Biology, 610 Taylor Road, Piscataway, NJ 08854, USA
    Structure 12:1099-108. 2004
    ..Small angle X-ray scattering measurements show that the self-association properties of trpR in solution are fundamentally altered by isopropanol...
  36. doi request reprint Data deposition and annotation at the worldwide protein data bank
    Shuchismita Dutta
    Research Collaboratory for Structural Bioinformatics Protein Data Bank RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ, USA
    Methods Mol Biol 426:81-101. 2008
    ..This chapter describes the tools and methods currently used for deposition, processing, and release of data in the PDB. References to future enhancements are also included...
  37. ncbi request reprint PDBML: the representation of archival macromolecular structure data in XML
    John Westbrook
    Research Collaboratory for Structural Bioinformatics Protein Data Bank RCSB PDB, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Piscataway, NJ 08854, USA
    Bioinformatics 21:988-92. 2005
    ..The correspondences between the PDB dictionary and the XML schema metadata are described as well as the XML representations of PDB dictionaries and data files...
  38. pmc EMDataBank.org: unified data resource for CryoEM
    Catherine L Lawson
    Department of Chemistry and Chemical Biology and Research Collaboratory for Structural Bioinformatics, Rutgers, The State University of New Jersey, 610 Taylor Road Piscataway, NJ 08854, USA
    Nucleic Acids Res 39:D456-64. 2011
    ....
  39. ncbi request reprint The crystal and molecular structure of a collagen-like peptide with a biologically relevant sequence
    R Z Kramer
    Department of Chemistry, Rutgers University, 610 Taylor Rd, Piscataway, NJ, 08854-8087, USA
    J Mol Biol 311:131-47. 2001
    ..The observed synergy between the packing arrangements and the extended hydration network indicates that hydration of the triple helix is directly related to its association with other molecules...
  40. pmc Three-dimensional EM structure of an intact activator-dependent transcription initiation complex
    Brian P Hudson
    Department of Chemistry and Chemical Biology, Rutgers University, 610 Taylor Road, Piscataway, NJ 08854, USA
    Proc Natl Acad Sci U S A 106:19830-5. 2009
    ..The structure also reveals the positions and shapes of species-specific domains within the RNAP beta', beta, and sigma(70) subunits...
  41. ncbi request reprint A structure-based method for identifying DNA-binding proteins and their sites of DNA-interaction
    William A McLaughlin
    Department of Chemistry and Chemical Biology, Rutgers The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    J Struct Funct Genomics 5:255-65. 2004
    ..For each of the candidate structures, possible sites of DNA-binding are indicated by listing the residue ranges of alpha helices likely to interact with DNA...
  42. ncbi request reprint Validation of protein structures for protein data bank
    John Westbrook
    Department of Chemistry, Rutgers State University of New York, Piscataway, New Jersey 08854, USA
    Methods Enzymol 374:370-85. 2003
  43. pmc The Protein Data Bank and structural genomics
    John Westbrook
    Research Collaboratory for Structural Bioinformatics, Rutgers, The State University of New Jersey, Department of Chemistry and Chemical Biology, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    Nucleic Acids Res 31:489-91. 2003
    ....
  44. ncbi request reprint Large macromolecular complexes in the Protein Data Bank: a status report
    Shuchismita Dutta
    The Research Collaboratory for Structural Bioinformatics Protein Data Bank, Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, USA
    Structure 13:381-8. 2005
    ..Some of the challenges at the PDB in representing, archiving, visualizing, and analyzing these structures are discussed along with possible means to overcome them...
  45. ncbi request reprint The nucleic acid database
    Helen M Berman
    Department of Chemistry, Rutgers University, Piscataway, NJ, USA
    Methods Biochem Anal 44:199-216. 2003
  46. ncbi request reprint Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA complex: DNA binding specificity based on energetics of DNA kinking
    S Chen
    Department of Chemistry and The Waksman Institute, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    J Mol Biol 314:63-74. 2001
    ..We further infer that the main determinant of DNA conformation in this system is protein-DNA interaction, and not DNA sequence...
  47. ncbi request reprint Conformational effects of Gly-X-Gly interruptions in the collagen triple helix
    Jordi Bella
    Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854 8087, USA
    J Mol Biol 362:298-311. 2006
    ..The structure suggests a role for Gly-X-Gly interruptions as defining regions of flexibility and molecular recognition in the otherwise relatively uniform repeating collagen conformation...
  48. ncbi request reprint The crystal structure of an autoprocessed Ser221Cys-subtilisin E-propeptide complex at 2.0 A resolution
    S C Jain
    Department of Chemistry, Rutgers University, 610 Taylor Road, Piscataway, NJ, 08854 8087, USA
    J Mol Biol 284:137-44. 1998
    ..The structure determination reported here provides additional information about the nature of the interaction between the subtilisin and propeptide domains in this complex...
  49. ncbi request reprint Realism about PDB
    Helen M Berman
    Nat Biotechnol 25:845-6; author reply 846. 2007
  50. pmc The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema
    Nita Deshpande
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
    Nucleic Acids Res 33:D233-7. 2005
    ..The current capabilities of the re-engineered site, which will become the RCSB production site at http://www.pdb.org in late 2005, are described...
  51. pmc Remediation of the protein data bank archive
    Kim Henrick
    MSD EBI, EMBL Outstation Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 36:D426-33. 2008
    ..The scope and methods used in this project are presented...
  52. ncbi request reprint The Protein Data Bank and lessons in data management
    Philip E Bourne
    Department of Pharmacology and San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0537, USA
    Brief Bioinform 5:23-30. 2004
    ..The role of the human factor in the form of users, collaborators, scientific society and ad hoc committees is also included...
  53. pmc The distribution and query systems of the RCSB Protein Data Bank
    Philip E Bourne
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0505, USA
    Nucleic Acids Res 32:D223-5. 2004
    ..The PDB's mandate is to disseminate this information in the most usable form and as widely as possible. The current query and distribution system is described and an alpha version of the future re-engineered system introduced...
  54. pmc Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins
    Susan Jones
    EMBL European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
    Nucleic Acids Res 31:7189-98. 2003
    ..This method was used to make predictions for a data set of 56 non-homologous DNA-binding proteins. Correct predictions made for 68% of the data set...
  55. ncbi request reprint Fundamentals of DNA and RNA structure
    Stephen Neidle
    Structural Biology Section, CRC Biomolecular Structure Unit, Institute of Cancer Research, London, UK
    Methods Biochem Anal 44:41-73. 2003
  56. pmc BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): new policies affecting biomolecular NMR depositions
    John L Markley
    Department of Biochemistry, University of Wisconsin Madison, Madison, WI 53706 1544, USA
    J Biomol NMR 40:153-5. 2008
    ..The BMRB now contains an archive of NMR data for metabolites and other small molecules found in biological systems...
  57. pmc The RNA Ontology Consortium: an open invitation to the RNA community
    Neocles B Leontis
    RNA 12:533-41. 2006
    ....
  58. pmc RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution)
    Jane S Richardson
    Department of Biochemistry, Duke University Medical Center, Durham, North Carolina, 27710 3711, USA
    RNA 14:465-81. 2008
    ..The RNA Ontology Consortium will combine this new backbone system with others that define base pairs, base-stacking, and hydrogen-bond relationships to provide a full description of RNA structural motifs...

Research Grants14

  1. BIOMOLECULAR STRUCTURE AND INTERACTIONS
    Helen Berman; Fiscal Year: 1999
    ..We plan to determine the structures of a series of model collagen peptides with the goal of understanding how collagen assembles and interacts with other molecules in its environment. ..
  2. NUCLEIC ACID STRUCTURES AND INTERACTIONS
    Helen Berman; Fiscal Year: 1993
    ..We will also continue pilot studies on the nucleotide binding enzyme, AMP nucleosidase with the goal of producing crystals suitable for a full x-ray crystallographic analysis...
  3. BIOMOLECULAR STRUCTURE AND INTERACTIONS
    Helen Berman; Fiscal Year: 2002
    ..In addition, we are determining the structures of selected oligonucleotides in an attempt to understand the effects of sequence and environment on DNA structure. ..