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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
3m1f ATP Actin, alpha skeletal muscle

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3m1f ATPActin, alpha skeletal muscle / 1.180
1qz5 ATPActin, alpha skeletal muscle / 1.067
4k41 ATPActin, alpha skeletal muscle / 1.051
1s22 ATPActin, alpha skeletal muscle / 1.048
1t44 ATPActin, alpha skeletal muscle / 1.048
3ffk ATPActin, alpha skeletal muscle / 1.046
3m6g ATPActin, alpha skeletal muscle / 1.041
4pki ATPActin, alpha skeletal muscle / 1.040
2q36 ATPActin, alpha skeletal muscle / 1.037
4pkg ATPActin, alpha skeletal muscle / 1.032
4cbx ATPActin-2 / 1.030
4pl8 ATPActin, alpha skeletal muscle / 1.015
2oan ATPActin, cytoplasmic 1 / 1.008
3a5o ATPMajor actin / 1.006
1wua ATPActin, alpha skeletal muscle / 1.002
1dej ATPMajor actin / 0.998
5ce3 ATPActin / 0.997
3w3d ATPActin, gamma-enteric smooth muscle / 0.989
2a41 ATPActin, alpha skeletal muscle / 0.984
2q97 ATPActin, alpha skeletal muscle / 0.982
1c0f ATPMajor actin / 0.980
3mn9 ATPActin-5C / 0.979
2v51 ATPActin, alpha skeletal muscle / 0.978
3chw ATPMajor actin / 0.972
1kxp ATPActin, alpha skeletal muscle / 0.971
1eqy ATPActin, alpha skeletal muscle / 0.969
3mn6 ATPActin-5C / 0.964
3eks ATPActin-5C / 0.961
1nlv ATPMajor actin / 0.942
1atn ATPActin, alpha skeletal muscle / 0.941
1rgi ATPActin, alpha skeletal muscle / 0.940
3eku ATPActin-5C / 0.940
3mn7 ATPActin-5C / 0.918
1lot ATPActin, alpha skeletal muscle / 0.911
3daw ATPActin, alpha skeletal muscle / 0.908
3el2 ATPActin-5C / 0.896
1mdu ATPActin, alpha skeletal muscle / 0.895
4b1v ATPActin, alpha skeletal muscle / 0.894
2p9k ATPActin-related protein 2 / 0.891
4pkh ADPActin, alpha skeletal muscle / 0.890
4ci6 ATPActin / 0.857
3tu5 ATPActin, alpha skeletal muscle / 0.852
4k42 ADPActin, alpha skeletal muscle / 0.846
4ehu ANP2-hydroxyisocaproyl-CoA dehydratase activator / 0.833
4m63 ATPActin-5C / 0.821
3wt0 ATPCell division protein FtsA / 0.818
1h1v ATPActin, alpha skeletal muscle / 0.807
1rfq ATPActin, alpha skeletal muscle / 0.803
3d2e ATPHeat shock protein homolog SSE1 / 0.801
1ijj ATPActin, alpha skeletal muscle / 0.796
3a5m ATPMajor actin / 0.787
4eht ADP2-hydroxyisocaproyl-CoA dehydratase activator / 0.767
4a62 ANPPlasmid segregation protein ParM / 0.764
1yxq ATPActin, alpha skeletal muscle / 0.760
3wqt ANPCell division protein FtsA / 0.759
1nmd ATPMajor actin / 0.746
2e2q ADPATP-dependent hexokinase / 0.716
4b9q ATPChaperone protein DnaK / 0.712
4jhd ANPActin-5C / 0.709
5bsm ATP4-coumarate--CoA ligase 2 6.2.1.12 0.704
3u4l ATPActin, cytoplasmic 1 / 0.697
4brd ANPEctonucleoside triphosphate diphosphohydrolase I / 0.693
4k43 ADPActin, alpha skeletal muscle / 0.686
1mwm ADPPlasmid segregation protein ParM / 0.684
4o4d ATPKinase / 0.683
4brg GNPEctonucleoside triphosphate diphosphohydrolase I / 0.678
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.671
1ngj ANPHeat shock cognate 71 kDa protein / 0.666
1nm1 ATPMajor actin / 0.666
4to5 TTPDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.666
4yj2 GTPTubulin alpha-1B chain / 0.666
3opx U5PSuppressor of disruption of TFIIS / 0.664
3wqu ATPCell division protein FtsA / 0.664
5itz GTPTubulin alpha-1B chain / 0.664
1yv5 RISFarnesyl pyrophosphate synthase 2.5.1.10 0.663
1nge ATPHeat shock cognate 71 kDa protein / 0.659
2g28 TDKPyruvate dehydrogenase E1 component 1.2.4.1 0.659
1ngc ADPHeat shock cognate 71 kDa protein / 0.655
4kh0 ATPAspartate carbamoyltransferase regulatory chain {ECO:0000256|HAMAP-Rule:MF_00002} / 0.654
5i4n ATPTyrosine-protein kinase JAK2 / 0.652