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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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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
2x0q ATP Alcaligin biosynthesis protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2x0q ATPAlcaligin biosynthesis protein / 1.243
2x3j ATPAcsD / 0.904
2w02 ATPAcsD / 0.878
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.758
3ori AGSSerine/threonine protein kinase / 0.747
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.726
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.712
3c4z ADPRhodopsin kinase / 0.709
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.705
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.700
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.699
4hut ATPCob(I)yrinic acid a,c-diamide adenosyltransferase 2.5.1.17 0.697
2pui ADPMethylthioribose kinase 2.7.1.100 0.696
2pup ADPMethylthioribose kinase 2.7.1.100 0.696
4n57 ADPAPH(2'')-Id / 0.692
2j0s ANPEukaryotic initiation factor 4A-III 3.6.4.13 0.690
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.687
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.684
1ayl ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.683
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.683
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.682
3w3z GTPGTP-binding nuclear protein Ran / 0.682
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.682
2jlr ANPGenome polyprotein 3.4.21.91 0.681
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.677
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.676
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.671
2cls GTPRho-related GTP-binding protein Rho6 / 0.670
3m0e ATPTranscriptional regulator (NtrC family) / 0.669
3sqx ANPATP-dependent RNA helicase MSS116, mitochondrial 3.6.4.13 0.669
2cl6 CAGGTPase HRas / 0.667
4dee ADPAurora kinase A 2.7.11.1 0.667
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
4g0n GNPGTPase HRas / 0.666
4zu4 4TGWxcM-like protein / 0.666
1azt GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.663
2db3 ANPATP-dependent RNA helicase vasa, isoform A 3.6.4.13 0.662
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.662
1atn ATPActin, alpha skeletal muscle / 0.661
3t3f N5PDNA polymerase I, thermostable 2.7.7.7 0.661
3dkv AP5Adenylate kinase / 0.660
3dyh 721Farnesyl pyrophosphate synthase / 0.659
4xjx ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.659
4c2u ANPDNA helicase / 0.658
1cs4 GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short / 0.657
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.657
2jj1 ANPATP synthase subunit alpha, mitochondrial / 0.657
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.656
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.656
5iqd GNPBifunctional AAC/APH 2.3.1 0.656
4h5c YS4Farnesyl pyrophosphate synthase 2.5.1.10 0.654
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.654
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.653
4bn1 ADPAurora kinase A 2.7.11.1 0.653
4uxx ACPDiacylglycerol kinase 2.7.1.107 0.653
1php ADPPhosphoglycerate kinase 2.7.2.3 0.652
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.652
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.651
1mdl SMNMandelate racemase / 0.650
4qbh AP5Adenylate kinase / 0.650