Databases

Protein Data Bank Access Nucleic Acid Database Access Small Molecule Database Access Molecular Structure Database Info

Protein Data Bank Access

Topic Web Site Link Description Author of Web Site
Search Protein Data Bank The single international repository of 3D macromolecular structure data
Brookhaven Gopher server Searches current preliminary, and on hold entries at Brookhaven
Entrez 3D Searches the Entrez Database NCBI
Molecules R Us Graphically displays molecular structures (an appropriate client-side viewer is required). P. FitzGerald, CIT, NIH
NRL_3D database Provides a searchable link between PDB entries, PIR sequences, and literature references. Pittsburgh Supercomputing Center, Carnegie Mellon Univ.
NIH Gopher server Searches the PDB at NIH (see instructions).
ProLink database Protein structure, sequence homolog, and functional pattern information. Kathleen Klose and Temple Smith, BioMolecular Engineering Research Center, Boston Univ.
Browse The Annotated Brookhaven Protein Database A WWW version of the "The Annotated Guide to the Brookhaven Protein Data Bank" Shivakumar L. Rajaraman, Beckman Institute, University of Illinois
"The Annotated Guide to the Brookhaven Protein Data Bank" A flat list of PDB entries that has been classified according to sequence similarity and species of origin Laura Lynn Walsh, Beckman Institute, University of Illinois
CATH (Class-Architecture-Topology-Homology) A hierarchical classification of protein structural relationships derived using a combination of automatic and manual C. Orengo, Univ. College London
PDB at a Glance A classification of the PDB by molecule type, with an interface to Molecules R Us R. Pearlstein, P. FitzGerald, CIT, NIH
PDB newsletters Brookhaven
The PDB Select List A unique list of PDB structures U. Hobohm & C. Sander, EMBL, Heildelberg
The Protein Science Kinemage Index A collection of PDB structures that can be viewed using the program MAGE Protein Science, Cambridge Univ. Press
SCOP A classification of the PDB by structure, and provides interfaces to Molecules R Us, SwissProt 3D Image, and RasMol Alexey Murzin, MRC Laboratory of Molecular Biology, Cambridge
Symmetry-Generated Structures Complete multimers of proteins with quaternary structure Brookhaven


Nucleic Acid Database Access

Web Site Link Author of Web Site
The Nucleic Acid Database Rutgers Univ.


Small Molecule Database Access

Web Site Link Description Author of Web Site
The Drug Information System 3D Database Home Page A 3D structure database of modeled anti-cancer and anti-AIDS compounds Dan Zaharevitz, National Cancer Institute
Klotho: Biochemical Compounds Declarative Database Washington Univ.
Small Molecules R Us Query the Cambridge Structural Database (CSD) at NIH by author, compound, entry date, etc., output "FDAT" files, and graphically display structures (an appropriate client-side viewer is required) P. FitzGerald, CIT, NIH
Hetero-compound Information Centre - Uppsala Information about hetero-compounds (small molecules) found in PDB files. Gerald J. Kleywegt, Uppsala University


Molecular Structure Database Info

Topic Web Site Link
Macromolecules Protein Data Bank
The Nucleic Acid Database
Small Molecules Cambridge Structural Database
The Drug Information System 3D Database
Klotho: Biochemical Compounds Declarative Database