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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
1w2d ADP Inositol-trisphosphate 3-kinase A 2.7.1.127

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.974
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.825
4o4d ATPKinase / 0.751
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.739
3bu5 ATPInsulin receptor 2.7.10.1 0.736
4xlv ACPInsulin receptor 2.7.10.1 0.728
3dqw AGSProto-oncogene tyrosine-protein kinase Src 2.7.10.2 0.722
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.717
5c1p ADPD-alanine--D-alanine ligase / 0.717
2p0a ANPSynapsin-3 / 0.715
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.714
2pui ADPMethylthioribose kinase 2.7.1.100 0.713
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.713
2pun ACPMethylthioribose kinase 2.7.1.100 0.709
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.705
4gyi ADPUncharacterized protein / 0.704
2pzp ACPFibroblast growth factor receptor 2 / 0.703
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.703
2pyw ADPMethylthioribose kinase 2.7.1.100 0.702
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.701
2pul ACPMethylthioribose kinase 2.7.1.100 0.700
2py3 ACPFibroblast growth factor receptor 2 / 0.697
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.697
3igo ANPCalmodulin-domain protein kinase 1, putative / 0.697
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.697
4o4f ATPKinase / 0.697
2if8 ADPInositol polyphosphate multikinase 2.7.1.151 0.696
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.695
4yhj AN2G protein-coupled receptor kinase 4 2.7.11.16 0.695
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.694
2olc ADPMethylthioribose kinase 2.7.1.100 0.694
3cly ACPFibroblast growth factor receptor 2 / 0.694
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.694
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.691
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.691
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.690
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.690
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.690
3c4w ATPRhodopsin kinase / 0.688
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.687
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.687
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.685
3a99 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.684
3ork AGSSerine/threonine protein kinase / 0.683
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.680
4axd ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.680
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.680
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.680
4o4e ATPKinase / 0.680
3g51 ANPRibosomal protein S6 kinase alpha-3 2.7.11.1 0.679
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.679
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.678
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.678
2pz5 ACPFibroblast growth factor receptor 2 / 0.678
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.677
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.676
2yaa ATPDeath-associated protein kinase 2 / 0.676
4y12 AGSSerine/threonine-protein kinase PknG 2.7.11.1 0.676
5l8j ADPAurora kinase A 2.7.11.1 0.676
4ffr ATPUncharacterized protein / 0.674
5bpf ADPD-alanine--D-alanine ligase / 0.674
5l8l ADPAurora kinase A 2.7.11.1 0.674
1m0w ANPGlutathione synthetase 6.3.2.3 0.673
2pup ADPMethylthioribose kinase 2.7.1.100 0.673
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.673
2xrw ANPMitogen-activated protein kinase 8 2.7.11.24 0.672
3a8w ATPProtein kinase C iota type 2.7.11.13 0.672
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.672
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.672
1kh3 ANPArgininosuccinate synthase / 0.671
3tw6 ADPPyruvate carboxylase / 0.671
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.670
2pml ANPUncharacterized protein / 0.670
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.670
3c4z ADPRhodopsin kinase / 0.670
3p23 ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.670
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.670
4qny ANPMitogen activated protein kinase, putative / 0.669
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.668
4dee ADPAurora kinase A 2.7.11.1 0.668
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.667
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.667
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.667
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.667
1day GNPCasein kinase II subunit alpha 2.7.11.1 0.666
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.666
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.665
4ckj ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.665
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.665
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.664
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.664
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.664
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.664
5iqa GNPBifunctional AAC/APH 2.3.1 0.664
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.663
1ir3 ANPInsulin receptor 2.7.10.1 0.662
3t8o ATPRhodopsin kinase / 0.662
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.662
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.662
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.661
2dwb ANPAurora kinase A 2.7.11.1 0.661
2ijm ATPFocal adhesion kinase 1 2.7.10.2 0.661
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.661
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.660
4c3r ACPAurora kinase A 2.7.11.1 0.660
4cki ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.660
4c3p ACPAurora kinase A 2.7.11.1 0.659
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.658
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.658
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.657
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.657
5eg3 ACPFibroblast growth factor receptor 2 / 0.657
5cno ANPEpidermal growth factor receptor 2.7.10.1 0.655
2c2a ADPSensor histidine kinase / 0.654
3wo1 ADPAlanine--anticapsin ligase / 0.654
5c1o ANPD-alanine--D-alanine ligase / 0.654
5drd ATPAurora kinase A 2.7.11.1 0.653
3llt ANPProtein serine/threonine kinase-1 / 0.652
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.651
5l8k ADPAurora kinase A 2.7.11.1 0.651
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.650
3ibq ATPPyridoxal kinase / 0.650
3wnz ADPAlanine--anticapsin ligase / 0.650
5iqh GNPBifunctional AAC/APH 2.3.1 0.650