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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
3ffk ATP Actin, alpha skeletal muscle

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3ffk ATPActin, alpha skeletal muscle / 1.098
3m1f ATPActin, alpha skeletal muscle / 1.046
1t44 ATPActin, alpha skeletal muscle / 1.038
1qz5 ATPActin, alpha skeletal muscle / 1.033
4pki ATPActin, alpha skeletal muscle / 1.009
1s22 ATPActin, alpha skeletal muscle / 1.007
4cbx ATPActin-2 / 1.003
2q36 ATPActin, alpha skeletal muscle / 0.993
1c0f ATPMajor actin / 0.977
4k41 ATPActin, alpha skeletal muscle / 0.975
4pkg ATPActin, alpha skeletal muscle / 0.971
4pl8 ATPActin, alpha skeletal muscle / 0.953
3mn7 ATPActin-5C / 0.951
2q97 ATPActin, alpha skeletal muscle / 0.948
3w3d ATPActin, gamma-enteric smooth muscle / 0.946
3mn9 ATPActin-5C / 0.937
1dej ATPMajor actin / 0.932
3a5o ATPMajor actin / 0.926
3eks ATPActin-5C / 0.921
3eku ATPActin-5C / 0.907
5ce3 ATPActin / 0.906
1lot ATPActin, alpha skeletal muscle / 0.900
1eqy ATPActin, alpha skeletal muscle / 0.899
1mdu ATPActin, alpha skeletal muscle / 0.898
2v51 ATPActin, alpha skeletal muscle / 0.895
2a41 ATPActin, alpha skeletal muscle / 0.893
4b1v ATPActin, alpha skeletal muscle / 0.889
1h1v ATPActin, alpha skeletal muscle / 0.884
3m6g ATPActin, alpha skeletal muscle / 0.877
1nlv ATPMajor actin / 0.876
2oan ATPActin, cytoplasmic 1 / 0.875
3daw ATPActin, alpha skeletal muscle / 0.872
1rgi ATPActin, alpha skeletal muscle / 0.870
4ci6 ATPActin / 0.867
1kxp ATPActin, alpha skeletal muscle / 0.866
2p9k ATPActin-related protein 2 / 0.866
3mn6 ATPActin-5C / 0.863
1wua ATPActin, alpha skeletal muscle / 0.861
3el2 ATPActin-5C / 0.856
3tu5 ATPActin, alpha skeletal muscle / 0.856
3wt0 ATPCell division protein FtsA / 0.855
4pkh ADPActin, alpha skeletal muscle / 0.841
3chw ATPMajor actin / 0.839
1atn ATPActin, alpha skeletal muscle / 0.808
3wqt ANPCell division protein FtsA / 0.790
1rfq ATPActin, alpha skeletal muscle / 0.780
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.779
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.775
1yxq ATPActin, alpha skeletal muscle / 0.734
4k42 ADPActin, alpha skeletal muscle / 0.726
4m63 ATPActin-5C / 0.726
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.721
1ijj ATPActin, alpha skeletal muscle / 0.718
4a62 ANPPlasmid segregation protein ParM / 0.717
4jhd ANPActin-5C / 0.694
2e2q ADPATP-dependent hexokinase / 0.693
2fsn ADPArchaeal actin homolog / 0.687
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.686
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.681
5i9e ATPActin-related protein 4 / 0.680
3ldl ATP78 kDa glucose-regulated protein / 0.674
4yj2 GTPTubulin alpha-1B chain / 0.673
4ihj GTPTubulin alpha-1B chain / 0.672
2zgy GDPPlasmid segregation protein ParM / 0.670
1zbd GTPRas-related protein Rab-3A / 0.668
3ule ATPActin-related protein 2 / 0.666
5f1x ATP78 kDa glucose-regulated protein / 0.665
1njf ADPDNA polymerase III subunit tau 2.7.7.7 0.663
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.663
1mwm ADPPlasmid segregation protein ParM / 0.662
3bxz ADPProtein translocase subunit SecA / 0.661
1ngh ATPHeat shock cognate 71 kDa protein / 0.660
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.660
1ats ADPHeat shock cognate 71 kDa protein / 0.659
3ahj TPPProbable phosphoketolase / 0.659
5itz GTPTubulin alpha-1B chain / 0.658
1ngi ANPHeat shock cognate 71 kDa protein / 0.656
2x60 GTPMannose-1-phosphate guanylyltransferase / 0.655
2zet GTPRas-related protein Rab-27B / 0.654
3hpr AP5Adenylate kinase / 0.654
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.652
4kh0 ATPAspartate carbamoyltransferase regulatory chain {ECO:0000256|HAMAP-Rule:MF_00002} / 0.652
4ymv ATPABC-type polar amino acid transport system, ATPase component / 0.651
3u9d ATPActin, alpha skeletal muscle / 0.650