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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
3c4x ATP Rhodopsin kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3c4x ATPRhodopsin kinase / 0.933
3c4w ATPRhodopsin kinase / 0.800
3t8o ATPRhodopsin kinase / 0.794
3c50 ADPRhodopsin kinase / 0.779
3c4z ADPRhodopsin kinase / 0.777
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.748
3qc9 ADPRhodopsin kinase / 0.743
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.738
2pup ADPMethylthioribose kinase 2.7.1.100 0.738
2pun ACPMethylthioribose kinase 2.7.1.100 0.735
2pyw ADPMethylthioribose kinase 2.7.1.100 0.726
2pul ACPMethylthioribose kinase 2.7.1.100 0.722
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.721
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.719
2dwb ANPAurora kinase A 2.7.11.1 0.719
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.712
4o4d ATPKinase / 0.712
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.711
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.706
2pz5 ACPFibroblast growth factor receptor 2 / 0.705
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.704
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.703
1mq4 ADPAurora kinase A 2.7.11.1 0.702
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.701
4dee ADPAurora kinase A 2.7.11.1 0.701
5dos ATPAurora kinase A 2.7.11.1 0.700
4ceg ADPAurora kinase A 2.7.11.1 0.698
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.696
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.695
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.691
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.690
3orm AGSSerine/threonine protein kinase / 0.688
5dt4 ATPAurora kinase A 2.7.11.1 0.688
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.684
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.684
4bn1 ADPAurora kinase A 2.7.11.1 0.684
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.682
4o1p ANPRibonuclease L / 0.682
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.679
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.678
4yhj AN2G protein-coupled receptor kinase 4 2.7.11.16 0.678
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.677
3cly ACPFibroblast growth factor receptor 2 / 0.675
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.672
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.672
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.671
3uim ANPBRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 2.7.10.1 0.670
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.669
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.669
2pui ADPMethylthioribose kinase 2.7.1.100 0.669
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.668
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.667
3mfu ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.666
5l8j ADPAurora kinase A 2.7.11.1 0.666
4jrn ANPRhoptry kinase family protein / 0.664
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.664
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.662
3bu5 ATPInsulin receptor 2.7.10.1 0.662
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.662
3lct ADPALK tyrosine kinase receptor 2.7.10.1 0.661
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.660
4lv8 ADPRhoptry protein 5 C / 0.660
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.659
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.657
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.656
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.656
4mv8 ACPBiotin carboxylase 6.3.4.14 0.656
1ol7 ADPAurora kinase A 2.7.11.1 0.655
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.655
2py3 ACPFibroblast growth factor receptor 2 / 0.655
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.655
5ce3 ADPProtein kinase YopO / 0.655
2wqe ADPAurora kinase A 2.7.11.1 0.654
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.654
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.654
4y12 AGSSerine/threonine-protein kinase PknG 2.7.11.1 0.654
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.653
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.653
1c3x 8IGPurine nucleoside phosphorylase 2.4.2.1 0.652
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.652
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.652
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.652
1ol5 ADPAurora kinase A 2.7.11.1 0.650
1zw5 ZOLFarnesyl pyrophosphate synthase 2.5.1.10 0.650
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.650