ATPbind is a meta-server approach to protein-ATP binding site prediction. Starting from given structure of query protein, ATPbind will identify the ATP-binding sites by using SVM to integrate the outputs of two template-based predictors, i.e., S-SITEatp (the extension of S-SITE) and TM-SITEatp (the extension of TM-SITE), and three discriminative sequence-driven features, i.e., position specific scoring matrix (PSSM), predicted secondary structure, and predicted solvent accessibility.
After protein-ATP binding site prediction, the ATPbind server implements a new binding pocket clustering scheme, PocHunter (download PocHunter.pdf
to see the details), to identify the pockets based on the predicted binding sites.
From May. 10 to Jul. 30, 2020 (CASP14 season), the LOMETS server will be closed
to external users.
Jobs already submitted will not be affected.
We apologize for any inconvenience this may cause.
[View an example of output
[List the benchmark dataset
[Download the benchmark dataset
Jun Hu, Yang Li, Yang Zhang, Dongjun Yu.
ATPbind: accurate protein-ATP binding site prediction by combining sequence-profiling and structure-based comparisons.
Journal of Chemical Information and Modeling, 58(2): 501-510 (2018).
(Download PDF and