Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4n57 ADP APH(2'')-Id

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4n57 ADPAPH(2'')-Id / 1.004
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.754
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.749
4ceg ADPAurora kinase A 2.7.11.1 0.748
2pup ADPMethylthioribose kinase 2.7.1.100 0.746
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.744
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.740
2pyw ADPMethylthioribose kinase 2.7.1.100 0.738
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.735
5dmz ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.735
5iqf GDPBifunctional AAC/APH 2.3.1 0.734
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.731
3tdv GDPGentamicin resistance protein / 0.729
4dee ADPAurora kinase A 2.7.11.1 0.729
4lv8 ADPRhoptry protein 5 C / 0.725
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.722
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.720
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.719
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.718
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.715
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.713
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.713
3c4z ADPRhodopsin kinase / 0.712
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.712
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.711
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.710
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.710
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.710
1mq4 ADPAurora kinase A 2.7.11.1 0.709
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.709
5iqh GNPBifunctional AAC/APH 2.3.1 0.708
5iqg GDPBifunctional AAC/APH 2.3.1 0.707
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.705
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.704
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.704
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.704
3tdw GDPGentamicin resistance protein / 0.702
4c3r ACPAurora kinase A 2.7.11.1 0.701
5byl GCPBifunctional AAC/APH 2.3.1 0.700
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.698
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.698
4utd ACPAurora kinase A 2.7.11.1 0.698
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.695
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.692
2x0q ATPAlcaligin biosynthesis protein / 0.692
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.691
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.691
4hne ADPPhosphatidylinositol 4-kinase type 2-alpha / 0.689
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.688
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.687
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.687
5drd ATPAurora kinase A 2.7.11.1 0.687
5iqb GNPBifunctional AAC/APH 2.3.1 0.687
2pui ADPMethylthioribose kinase 2.7.1.100 0.685
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
2pz5 ACPFibroblast growth factor receptor 2 / 0.684
4c3p ACPAurora kinase A 2.7.11.1 0.684
5l8j ADPAurora kinase A 2.7.11.1 0.684
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.683
4ork GDPBifunctional AAC/APH 2.3.1 0.683
3pff ADPATP-citrate synthase 2.3.3.8 0.682
5l8k ADPAurora kinase A 2.7.11.1 0.681
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.679
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.678
5iqa GNPBifunctional AAC/APH 2.3.1 0.678
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.677
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.676
2pun ACPMethylthioribose kinase 2.7.1.100 0.675
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.674
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.673
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.672
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.672
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.671
1ny3 ADPMAP kinase-activated protein kinase 2 2.7.11.1 0.669
3wnz ADPAlanine--anticapsin ligase / 0.669
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.668
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.667
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.667
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.667
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.667
4o4d ATPKinase / 0.667
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.666
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.666
3uim ANPBRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 2.7.10.1 0.666
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
5iqi GNPBifunctional AAC/APH 2.3.1 0.666
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.665
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.665
3cly ACPFibroblast growth factor receptor 2 / 0.664
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.664
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.663
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.663
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.663
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.662
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.662
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.662
3bu5 ATPInsulin receptor 2.7.10.1 0.662
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.662
2py3 ACPFibroblast growth factor receptor 2 / 0.660
2qo9 ANPEphrin type-A receptor 3 2.7.10.1 0.660
2xan ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.660
5ce3 ADPProtein kinase YopO / 0.660
5iqe GNPBifunctional AAC/APH 2.3.1 0.660
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.659
4fj5 DTPDNA-directed DNA polymerase / 0.659
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.659
4q5h ANPProtein kinase OspG 2.7 0.659
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.659
4bn1 ADPAurora kinase A 2.7.11.1 0.658
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
2pzp ACPFibroblast growth factor receptor 2 / 0.657
3c50 ADPRhodopsin kinase / 0.657
4gyi ADPUncharacterized protein / 0.657
4to3 DGTDeoxynucleoside triphosphate triphosphohydrolase SAMHD1 3.1.5 0.657
5dt3 ATPAurora kinase A 2.7.11.1 0.657
1i44 ACPInsulin receptor 2.7.10.1 0.656
2x3j ATPAcsD / 0.656
3mhy ATPNitrogen regulatory protein P-II 1 / 0.656
4mkf AP5Adenylate kinase / 0.656
4nm0 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.656
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.656
1pkg ADPMast/stem cell growth factor receptor Kit 2.7.10.1 0.655
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.655
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.654
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.653
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.653
4ysj ADPCalmodulin-like domain protein kinase / 0.653
1os1 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.651
3qc9 ADPRhodopsin kinase / 0.651
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.651
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.650
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.650
3igo ANPCalmodulin-domain protein kinase 1, putative / 0.650
4ffl ADPUncharacterized protein / 0.650
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.650