Finding enzyme cofactors in Protein Data Bank.

ABSTRACT:

Motivation

Cofactors are essential for many enzyme reactions. The Protein Data Bank (PDB) contains >67 000 entries containing enzyme structures, many with bound cofactor or cofactor-like molecules. This work aims to identify and categorize these small molecules in the PDB and make it easier to find them.

Results

The Protein Data Bank in Europe (PDBe; pdbe.org) has implemented a pipeline to identify enzyme cofactor and cofactor-like molecules, which are now part of the PDBe weekly release process.

Availability and implementation

Information is made available on the individual PDBe entry pages at pdbe.org and programmatically through the PDBe REST API (pdbe.org/api).

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Mukhopadhyay A 

PROVIDER: S-EPMC6748742 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature