Home Research Services Publications People Teaching Jobs Opening Facilities News Forum Lab Only
Online Services

I-TASSER QUARK LOMETS COACH COFACTOR MetaGO MUSTER SEGMER FG-MD ModRefiner REMO SPRING COTH BSpred SVMSEQ ANGLOR BSP-SLIM SAXSTER ThreaDom ThreaDomEx EvoDesign GPCR-I-TASSER BindProf BindProfX ResQ IonCom STRUM

TM-score TM-align MM-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR NeBcon WDL-RF ATPbind

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP TM-fold DECOYS POTENTIAL RW HPSF CASP7 CASP8 CASP9 CASP10 CASP11 CASP12


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. Users are also allowed to input primary sequence, where I-TASSER will be used to generate 3D model first which are then fed into the ATPbind pipeline for protein-ATP binding site prediction. If the input is a sequence, we strongly suggest users to employ the I-TASSER server to model the 3D structure first, since the I-TASSER server used in ATPbind is not the newest one. 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.

[View an example of output] [List the benchmark dataset] [Download the benchmark dataset]

Please copy and paste your data below (either structure in PDB format or sequence in FASTA format is acceptable)
Click for an example PDB input    Click for an example FASTA input

Or upload the stucture/sequence file:

Email: (Optional, where results will be sent to)

ID: (Optional, your given name to this protein)


References:

yangzhanglabumich.edu | (734) 647-1549 | 100 Washtenaw Avenue, Ann Arbor, MI 48109-2218