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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
3a5m ATP Major actin

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3a5m ATPMajor actin / 1.112
1yxq ATPActin, alpha skeletal muscle / 1.059
1nm1 ATPMajor actin / 0.959
1nlv ATPMajor actin / 0.921
1nmd ATPMajor actin / 0.917
2v51 ATPActin, alpha skeletal muscle / 0.895
4b1v ATPActin, alpha skeletal muscle / 0.875
1kxp ATPActin, alpha skeletal muscle / 0.871
1t44 ATPActin, alpha skeletal muscle / 0.862
4jhd ANPActin-5C / 0.862
3a5o ATPMajor actin / 0.860
2a41 ATPActin, alpha skeletal muscle / 0.858
2q36 ATPActin, alpha skeletal muscle / 0.848
1c0f ATPMajor actin / 0.840
3mn6 ATPActin-5C / 0.835
4pkg ATPActin, alpha skeletal muscle / 0.832
4pki ATPActin, alpha skeletal muscle / 0.831
1dej ATPMajor actin / 0.826
4k41 ATPActin, alpha skeletal muscle / 0.822
3wt0 ATPCell division protein FtsA / 0.821
1wua ATPActin, alpha skeletal muscle / 0.815
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.814
4pl8 ATPActin, alpha skeletal muscle / 0.813
1qz5 ATPActin, alpha skeletal muscle / 0.802
3m6g ATPActin, alpha skeletal muscle / 0.799
1eqy ATPActin, alpha skeletal muscle / 0.798
1mdu ATPActin, alpha skeletal muscle / 0.798
2q97 ATPActin, alpha skeletal muscle / 0.798
3daw ATPActin, alpha skeletal muscle / 0.795
3eks ATPActin-5C / 0.793
1s22 ATPActin, alpha skeletal muscle / 0.789
3w3d ATPActin, gamma-enteric smooth muscle / 0.789
1lot ATPActin, alpha skeletal muscle / 0.788
4a61 ANPPlasmid segregation protein ParM / 0.788
3m1f ATPActin, alpha skeletal muscle / 0.787
3ule ATPActin-related protein 2 / 0.782
2p9k ATPActin-related protein 2 / 0.775
3mn7 ATPActin-5C / 0.775
3mn9 ATPActin-5C / 0.775
3tu5 ATPActin, alpha skeletal muscle / 0.772
3chw ATPMajor actin / 0.766
1h1v ATPActin, alpha skeletal muscle / 0.758
3eku ATPActin-5C / 0.757
4a2b AGSCell division protein FtsA / 0.751
3el2 ATPActin-5C / 0.734
4m63 ATPActin-5C / 0.734
2oan ATPActin, cytoplasmic 1 / 0.732
4ci6 ATPActin / 0.731
1ijj ATPActin, alpha skeletal muscle / 0.730
1atn ATPActin, alpha skeletal muscle / 0.728
5ce3 ATPActin / 0.726
4k42 ADPActin, alpha skeletal muscle / 0.724
4cbx ATPActin-2 / 0.720
4b9q ATPChaperone protein DnaK / 0.719
2qwl ADPHeat shock cognate 71 kDa protein / 0.718
2zgz GNPPlasmid segregation protein ParM / 0.717
1ngb ADPHeat shock cognate 71 kDa protein / 0.713
1rfq ATPActin, alpha skeletal muscle / 0.713
2fsn ADPArchaeal actin homolog / 0.708
3wqu ATPCell division protein FtsA / 0.706
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.704
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.700
3fe1 ADPHeat shock 70 kDa protein 6 / 0.682
1rgi ATPActin, alpha skeletal muscle / 0.677
3hsc ADPHeat shock cognate 71 kDa protein / 0.676
4k43 ADPActin, alpha skeletal muscle / 0.676
1i7l ATPSynapsin-2 / 0.675
1ngd ADPHeat shock cognate 71 kDa protein / 0.675
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.675
3wqt ANPCell division protein FtsA / 0.672
1e4g ATPCell division protein FtsA / 0.669
1nge ATPHeat shock cognate 71 kDa protein / 0.667
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.664
2oo7 AP5Adenylate kinase / 0.662
2qaj AP5Adenylate kinase / 0.662
4fvr ATPTyrosine-protein kinase JAK2 / 0.662
1xs4 DCPdCTP deaminase / 0.660
5c1d 12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit / 0.660
2a84 ATPPantothenate synthetase 6.3.2.1 0.659
2qwn ADPHeat shock cognate 71 kDa protein / 0.659
1ngh ATPHeat shock cognate 71 kDa protein / 0.657
4rwt ANPActin-5C / 0.657
5f2r ACP78 kDa glucose-regulated protein / 0.656
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.654
4a2a ATPCell division protein FtsA / 0.653
1mab ATPATP synthase subunit alpha, mitochondrial / 0.651
5bnw 12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit / 0.651
4f79 P53Putative phospho-beta-glucosidase / 0.650