Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
2a5y ATP Cell death protein 4

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2a5y ATPCell death protein 4 / 1.101
4kvg GTPRas-related protein Rap-1A / 0.730
3bbp GTPRas-related protein Rab-6A / 0.719
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.718
4xvu ATPATPase GET3 / 0.717
2ic5 GNPRas-related C3 botulinum toxin substrate 3 / 0.709
2cl6 CAGGTPase HRas / 0.708
2g0n GDPRas-related C3 botulinum toxin substrate 3 / 0.705
2ic5 GDPRas-related C3 botulinum toxin substrate 3 / 0.705
3th5 GNPRas-related C3 botulinum toxin substrate 1 / 0.701
1esn ANPPantothenate kinase 2.7.1.33 0.698
2jlr ANPGenome polyprotein 3.4.21.91 0.694
2p2l GDPRas-related C3 botulinum toxin substrate 1 / 0.692
1oix GDPRas-related protein Rab-11A / 0.691
2gil GTPRas-related protein Rab-6A / 0.690
3a6p GTPGTP-binding nuclear protein Ran / 0.689
1zio AP5Adenylate kinase / 0.688
4tyq AP5Adenylate kinase / 0.688
3c41 ANPAmino acid ABC transporter / 0.686
2jj2 ANPATP synthase subunit beta, mitochondrial 3.6.3.14 0.684
4mit GTPRho-related protein racC / 0.684
3hu1 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.683
2ffq GSPRas-related protein Rab-6B / 0.682
2cls GTPRho-related GTP-binding protein Rho6 / 0.681
1zc3 GNPRas-related protein Ral-A / 0.680
1zc4 GNPRas-related protein Ral-A / 0.678
2aky AP5Adenylate kinase / 0.678
1xts GTPGTP-binding protein Rheb / 0.676
2c96 ATPPsp operon transcriptional activator / 0.676
2w2v GTPRas-related C3 botulinum toxin substrate 2 / 0.675
4q02 GDPGTPase KRas / 0.675
4q03 GDPGTPase KRas / 0.675
3k3b ADPKinesin-like protein KIF11 / 0.674
2qtv GNPSmall COPII coat GTPase SAR1 3.6.5 0.673
3q9l ATPSeptum site-determining protein MinD / 0.672
4dsn GCPGTPase KRas / 0.671
4o25 GTPGTP-binding protein Rheb / 0.671
5l3s GNPSignal recognition particle receptor FtsY / 0.670
4oi4 ATPmRNA cleavage and polyadenylation factor CLP1 / 0.668
4tld AGSCircadian clock protein kinase KaiC 2.7.11.1 0.668
3ref GDPRho family GTPase / 0.663
4lv6 GDPGTPase KRas / 0.663
3lbh GNPGTPase HRas / 0.662
3x1w GDPRas-related protein Rap-1b / 0.661
2fe4 GDPRas-related protein Rab-6B / 0.660
1m2o GNPSmall COPII coat GTPase SAR1 3.6.5 0.658
1z0f GDPRas-related protein Rab-14 / 0.658
3myk ANPMyosin-2 heavy chain / 0.658
1d5c GDPGTPase (Rab6) / 0.657
2v7q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.656
4qbg AP5Adenylate kinase / 0.656
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.655
4kln AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.655
2rgx AP5Adenylate kinase / 0.654
3e5h GNPRas-related protein Rab-28 / 0.654
3hu3 AGSTransitional endoplasmic reticulum ATPase 3.6.4.6 0.653
1i4l GDPRas-related C3 botulinum toxin substrate 1 / 0.652
4gzm GSPRas-related C3 botulinum toxin substrate 1 / 0.652
1p3j AP5Adenylate kinase / 0.651
2hf8 GSPProbable hydrogenase nickel incorporation protein HypB / 0.651
4nh0 ATPESX secretion system protein EccC / 0.651
1z0d GDPRas-related protein Rab-5C / 0.650