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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
3pff ADP ATP-citrate synthase 2.3.3.8

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3pff ADPATP-citrate synthase 2.3.3.8 1.030
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.784
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.745
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.741
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.725
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.723
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.721
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.717
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.709
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.708
3c4z ADPRhodopsin kinase / 0.707
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.706
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.704
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.703
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.703
3g51 ANPRibosomal protein S6 kinase alpha-3 2.7.11.1 0.696
1pkg ADPMast/stem cell growth factor receptor Kit 2.7.10.1 0.694
4xlv ACPInsulin receptor 2.7.10.1 0.694
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.693
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.693
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.692
5c1p ADPD-alanine--D-alanine ligase / 0.691
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.690
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.688
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.687
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.684
5dt4 ATPAurora kinase A 2.7.11.1 0.684
5iqi GNPBifunctional AAC/APH 2.3.1 0.683
4n57 ADPAPH(2'')-Id / 0.682
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.680
4gvz ADPArginine kinase 2.7.3.3 0.679
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.678
4dee ADPAurora kinase A 2.7.11.1 0.678
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.678
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.677
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.676
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.675
2pup ADPMethylthioribose kinase 2.7.1.100 0.675
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.674
5dos ATPAurora kinase A 2.7.11.1 0.673
5bpf ADPD-alanine--D-alanine ligase / 0.672
4ffl ADPUncharacterized protein / 0.671
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.670
1cm8 ANPMitogen-activated protein kinase 12 / 0.666
1p52 ADPArginine kinase 2.7.3.3 0.666
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.666
2hgs ADPGlutathione synthetase 6.3.2.3 0.665
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.663
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.663
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.663
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.662
3qc9 ADPRhodopsin kinase / 0.662
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.661
4ffm ADPUncharacterized protein / 0.661
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.660
2wqe ADPAurora kinase A 2.7.11.1 0.659
3bu5 ATPInsulin receptor 2.7.10.1 0.659
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.659
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.658
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.658
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.656
4ffr ATPUncharacterized protein / 0.656
3tdw GDPGentamicin resistance protein / 0.655
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.655
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.655
4to4 DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.655
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.653
4tld AGSCircadian clock protein kinase KaiC 2.7.11.1 0.653
4tl8 AGSCircadian clock protein kinase KaiC 2.7.11.1 0.650
4tle AGSCircadian clock protein kinase KaiC 2.7.11.1 0.650