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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
4k41 ATP Actin, alpha skeletal muscle

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4k41 ATPActin, alpha skeletal muscle / 1.181
1s22 ATPActin, alpha skeletal muscle / 1.176
1qz5 ATPActin, alpha skeletal muscle / 1.175
4pkg ATPActin, alpha skeletal muscle / 1.159
1wua ATPActin, alpha skeletal muscle / 1.130
4b1v ATPActin, alpha skeletal muscle / 1.130
1t44 ATPActin, alpha skeletal muscle / 1.127
1dej ATPMajor actin / 1.122
1c0f ATPMajor actin / 1.120
3m6g ATPActin, alpha skeletal muscle / 1.111
4pki ATPActin, alpha skeletal muscle / 1.107
4pl8 ATPActin, alpha skeletal muscle / 1.091
2q36 ATPActin, alpha skeletal muscle / 1.086
3a5o ATPMajor actin / 1.086
3w3d ATPActin, gamma-enteric smooth muscle / 1.083
1eqy ATPActin, alpha skeletal muscle / 1.070
3eks ATPActin-5C / 1.067
3mn9 ATPActin-5C / 1.065
3chw ATPMajor actin / 1.062
1kxp ATPActin, alpha skeletal muscle / 1.054
2v51 ATPActin, alpha skeletal muscle / 1.052
3m1f ATPActin, alpha skeletal muscle / 1.051
3tu5 ATPActin, alpha skeletal muscle / 1.051
3eku ATPActin-5C / 1.034
2q97 ATPActin, alpha skeletal muscle / 1.032
4cbx ATPActin-2 / 1.032
2a41 ATPActin, alpha skeletal muscle / 1.030
1nlv ATPMajor actin / 1.029
3mn7 ATPActin-5C / 1.029
3mn6 ATPActin-5C / 1.022
5ce3 ATPActin / 1.000
1mdu ATPActin, alpha skeletal muscle / 0.996
3ffk ATPActin, alpha skeletal muscle / 0.975
2oan ATPActin, cytoplasmic 1 / 0.971
1rgi ATPActin, alpha skeletal muscle / 0.970
3daw ATPActin, alpha skeletal muscle / 0.966
3el2 ATPActin-5C / 0.965
2p9k ATPActin-related protein 2 / 0.929
4pkh ADPActin, alpha skeletal muscle / 0.909
1h1v ATPActin, alpha skeletal muscle / 0.907
1lot ATPActin, alpha skeletal muscle / 0.905
1atn ATPActin, alpha skeletal muscle / 0.903
3wt0 ATPCell division protein FtsA / 0.903
4ci6 ATPActin / 0.894
4b9q ATPChaperone protein DnaK / 0.882
4m63 ATPActin-5C / 0.829
1yxq ATPActin, alpha skeletal muscle / 0.822
3a5m ATPMajor actin / 0.822
1rfq ATPActin, alpha skeletal muscle / 0.811
1ijj ATPActin, alpha skeletal muscle / 0.807
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.795
4k42 ADPActin, alpha skeletal muscle / 0.795
3d2e ATPHeat shock protein homolog SSE1 / 0.791
1nm1 ATPMajor actin / 0.787
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.776
3wqt ANPCell division protein FtsA / 0.764
1nmd ATPMajor actin / 0.755
3ule ATPActin-related protein 2 / 0.739
2e2q ADPATP-dependent hexokinase / 0.736
4jhd ANPActin-5C / 0.736
4a61 ANPPlasmid segregation protein ParM / 0.729
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.727
2d0o ADPDiol dehydratase-reactivating factor alpha subunit / 0.725
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.724
3ldo ANP78 kDa glucose-regulated protein / 0.722
5f1x ATP78 kDa glucose-regulated protein / 0.722
3ldl ATP78 kDa glucose-regulated protein / 0.718
4k43 ADPActin, alpha skeletal muscle / 0.717
4a62 ANPPlasmid segregation protein ParM / 0.712
1ats ADPHeat shock cognate 71 kDa protein / 0.707
1ngd ADPHeat shock cognate 71 kDa protein / 0.707
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.703
2zgy GDPPlasmid segregation protein ParM / 0.691
3hsc ADPHeat shock cognate 71 kDa protein / 0.691
1mwm ADPPlasmid segregation protein ParM / 0.689
1ngb ADPHeat shock cognate 71 kDa protein / 0.686
3u4l ATPActin, cytoplasmic 1 / 0.684
3u9d ATPActin, alpha skeletal muscle / 0.680
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.677
2x60 GTPMannose-1-phosphate guanylyltransferase / 0.677
1e4g ATPCell division protein FtsA / 0.675
2qwn ADPHeat shock cognate 71 kDa protein / 0.675
3ub5 ATPActin, cytoplasmic 1 / 0.675
2qwl ADPHeat shock cognate 71 kDa protein / 0.673
2a84 ATPPantothenate synthetase 6.3.2.1 0.669
3ryh GTPTubulin alpha chain / 0.668
4ihj GTPTubulin alpha-1B chain / 0.668
1ngi ANPHeat shock cognate 71 kDa protein / 0.664
3wqu ATPCell division protein FtsA / 0.663
4dwb 0M7Farnesyl pyrophosphate synthase / 0.662
1rqj RISFarnesyl diphosphate synthase 2.5.1.10 0.661
5itz GTPTubulin alpha-1B chain / 0.661
2v9x DUTdCTP deaminase / 0.660
4yj2 GTPTubulin alpha-1B chain / 0.660
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.659
2fsn ADPArchaeal actin homolog / 0.658
2zgz GNPPlasmid segregation protein ParM / 0.658
1nly AGSCag alpha / 0.655
3ldw IPEFarnesyl pyrophosphate synthase, putative / 0.655
4pxz CLRP2Y purinoceptor 12 / 0.654
4ymv ATPABC-type polar amino acid transport system, ATPase component / 0.654
2r4u ADPGlycogen synthase 2.4.1.21 0.653
4xjx ATPType I restriction enzyme EcoR124II R protein 3.1.21.3 0.653
4dqw ATPInosine-5'-monophosphate dehydrogenase / 0.652
3hzi ATPSerine/threonine-protein kinase toxin HipA / 0.650