KLIFS: A structural kinase-ligand interaction database

Research output: Contribution to journalJournal articleResearchpeer-review

Albert J. Kooistra, Georgi K. Kanev, Oscar P.J. Van Linden, Rob Leurs, Iwan J.P. De Esch, Chris De Graaf

Protein kinases play a crucial role in cell signaling and are important drug targets in several therapeutic areas. The KLIFS database contains detailed structural kinase-ligand interaction information derived from all (>2900) structures of catalytic domains of human and mouse protein kinases deposited in the Protein Data Bank in order to provide insights into the structural determinants of kinase-ligand binding and selectivity. The kinase structures have been processed in a consistent manner by systematically analyzing the structural features and molecular interaction fingerprints (IFPs) of a predefined set of 85 binding site residues with bound ligands. KLIFS has been completely rebuilt and extended (>65% more structures) since its first release as a data set, including: novel automated annotation methods for (i) the assessment of ligand-targeted subpockets and the analysis of (ii) DFG and (iii) αC-helix conformations; improved and automated protocols for (iv) the generation of sequence/structure alignments, (v) the curation of ligand atom and bond typing for accurate IFP analysis and (vi) weekly database updates. KLIFS is now accessible via a website (http://klifs.vucompmedchem.nl) that provides a comprehensive visual presentation of different types of chemical, biological and structural chemogenomics data, and allows the user to easily access, compare, search and download the data.

Original languageEnglish
JournalNucleic Acids Research
Volume44
Issue numberD1
Pages (from-to)D365-D371
ISSN0305-1048
DOIs
Publication statusPublished - 1 Jan 2016
Externally publishedYes

ID: 199352202