| 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 |
| Web Site Link | Description | Author of Web Site |
| Enhanced NCI Database Browser |
A web-based interface to search among 250,000 open NCI database structures by numerous search criteria, including hundreds of predicted biological activities and 3D pharmacophores, with powerful listing, visualization,
download, and cross-linking capabilities. |
Marc C. Nicklaus, NCI, NIH; Wolf-Dietrich Ihlenfeldt, Computer Chemistry Center, University Erlangen-Nuremberg |
| The Drug Information System 3D Database Home Page |
A 3D structure database of modeled anti-cancer and anti-AIDS compounds |
Dan Zaharevitz, NCI, NIH |
| 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 |