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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
4pki ATP Actin, alpha skeletal muscle

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4pki ATPActin, alpha skeletal muscle / 1.133
4pkg ATPActin, alpha skeletal muscle / 1.124
1s22 ATPActin, alpha skeletal muscle / 1.107
4k41 ATPActin, alpha skeletal muscle / 1.107
1qz5 ATPActin, alpha skeletal muscle / 1.093
1t44 ATPActin, alpha skeletal muscle / 1.078
3m6g ATPActin, alpha skeletal muscle / 1.074
4pl8 ATPActin, alpha skeletal muscle / 1.072
4b1v ATPActin, alpha skeletal muscle / 1.065
2q36 ATPActin, alpha skeletal muscle / 1.059
1dej ATPMajor actin / 1.053
1c0f ATPMajor actin / 1.051
3mn9 ATPActin-5C / 1.049
3a5o ATPMajor actin / 1.048
5ce3 ATPActin / 1.048
3m1f ATPActin, alpha skeletal muscle / 1.040
3mn6 ATPActin-5C / 1.034
2q97 ATPActin, alpha skeletal muscle / 1.030
3w3d ATPActin, gamma-enteric smooth muscle / 1.030
1wua ATPActin, alpha skeletal muscle / 1.017
1eqy ATPActin, alpha skeletal muscle / 1.016
3eks ATPActin-5C / 1.014
3daw ATPActin, alpha skeletal muscle / 1.012
3mn7 ATPActin-5C / 1.012
3ffk ATPActin, alpha skeletal muscle / 1.009
1kxp ATPActin, alpha skeletal muscle / 1.007
1mdu ATPActin, alpha skeletal muscle / 0.999
3eku ATPActin-5C / 0.996
4cbx ATPActin-2 / 0.986
3tu5 ATPActin, alpha skeletal muscle / 0.985
1rgi ATPActin, alpha skeletal muscle / 0.970
2a41 ATPActin, alpha skeletal muscle / 0.967
2oan ATPActin, cytoplasmic 1 / 0.963
1atn ATPActin, alpha skeletal muscle / 0.958
3chw ATPMajor actin / 0.950
2v51 ATPActin, alpha skeletal muscle / 0.940
4pkh ADPActin, alpha skeletal muscle / 0.933
4ci6 ATPActin / 0.915
1nlv ATPMajor actin / 0.913
1lot ATPActin, alpha skeletal muscle / 0.910
3el2 ATPActin-5C / 0.901
1h1v ATPActin, alpha skeletal muscle / 0.897
2p9k ATPActin-related protein 2 / 0.875
4k42 ADPActin, alpha skeletal muscle / 0.844
3wt0 ATPCell division protein FtsA / 0.838
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.834
3a5m ATPMajor actin / 0.831
1ijj ATPActin, alpha skeletal muscle / 0.824
1rfq ATPActin, alpha skeletal muscle / 0.796
1yxq ATPActin, alpha skeletal muscle / 0.792
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.792
4m63 ATPActin-5C / 0.786
4a62 ANPPlasmid segregation protein ParM / 0.779
4a61 ANPPlasmid segregation protein ParM / 0.769
1nmd ATPMajor actin / 0.758
2e2q ADPATP-dependent hexokinase / 0.755
1nm1 ATPMajor actin / 0.736
4jhd ANPActin-5C / 0.727
4k43 ADPActin, alpha skeletal muscle / 0.725
3wqt ANPCell division protein FtsA / 0.720
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.718
2fsn ADPArchaeal actin homolog / 0.716
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.711
1mwm ADPPlasmid segregation protein ParM / 0.708
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.704
3orl AGSSerine/threonine protein kinase / 0.694
2zgy GDPPlasmid segregation protein ParM / 0.691
3u4l ATPActin, cytoplasmic 1 / 0.691
4yj2 GTPTubulin alpha-1B chain / 0.685
4fvq ATPTyrosine-protein kinase JAK2 / 0.677
3u9d ATPActin, alpha skeletal muscle / 0.676
3ule ATPActin-related protein 2 / 0.675
2qzs ADPGlycogen synthase 2.4.1.21 0.672
3ryh GTPTubulin alpha chain / 0.672
4ihj GTPTubulin alpha-1B chain / 0.668
4tv9 GTPTubulin alpha-1B chain / 0.668
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.667
4dwb 0M7Farnesyl pyrophosphate synthase / 0.664
4iij GTPTubulin alpha-1B chain / 0.662
1h8h ATPATP synthase subunit alpha, mitochondrial / 0.661
1h8h ATPATP synthase subunit beta, mitochondrial 3.6.3.14 0.661
2pz8 APCNH(3)-dependent NAD(+) synthetase / 0.660
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.659
4kh0 ATPAspartate carbamoyltransferase regulatory chain {ECO:0000256|HAMAP-Rule:MF_00002} / 0.657
2qta TDPPyruvate dehydrogenase E1 component 1.2.4.1 0.654
4ymv ATPABC-type polar amino acid transport system, ATPase component / 0.654
1ake AP5Adenylate kinase / 0.652
3wqu ATPCell division protein FtsA / 0.652
2r4u ADPGlycogen synthase 2.4.1.21 0.651
3hzi ATPSerine/threonine-protein kinase toxin HipA / 0.651
5itz GTPTubulin alpha-1B chain / 0.651
1yq7 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.650