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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
5iqf GDP Bifunctional AAC/APH 2.3.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5iqf GDPBifunctional AAC/APH 2.3.1 1.044
3tdw GDPGentamicin resistance protein / 0.898
5iqb GNPBifunctional AAC/APH 2.3.1 0.870
3tdv GDPGentamicin resistance protein / 0.855
5iqh GNPBifunctional AAC/APH 2.3.1 0.843
5byl GCPBifunctional AAC/APH 2.3.1 0.838
5iqa GNPBifunctional AAC/APH 2.3.1 0.825
4ork GDPBifunctional AAC/APH 2.3.1 0.804
5iqg GDPBifunctional AAC/APH 2.3.1 0.783
5iqi GNPBifunctional AAC/APH 2.3.1 0.776
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.766
5iqd GNPBifunctional AAC/APH 2.3.1 0.764
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.754
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.751
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.748
5iqe GNPBifunctional AAC/APH 2.3.1 0.743
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.740
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.737
4n57 ADPAPH(2'')-Id / 0.734
5ce3 ADPProtein kinase YopO / 0.732
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.726
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.725
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.725
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.723
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.721
2pyw ADPMethylthioribose kinase 2.7.1.100 0.720
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.719
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.718
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.718
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.717
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.716
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.713
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.713
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.713
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.713
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.711
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.710
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.709
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.708
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.708
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.707
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.707
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.705
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.705
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.704
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.703
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.701
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.701
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.701
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.700
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.699
4dee ADPAurora kinase A 2.7.11.1 0.698
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.697
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.697
4ceg ADPAurora kinase A 2.7.11.1 0.697
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.696
1mq4 ADPAurora kinase A 2.7.11.1 0.695
3dyn PCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.695
2pup ADPMethylthioribose kinase 2.7.1.100 0.694
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.694
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.693
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.692
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.691
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.691
3c4z ADPRhodopsin kinase / 0.688
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.687
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.687
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.686
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.686
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.685
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.684
4dt9 GMPAPH(2'')-Id / 0.683
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.682
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.681
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.679
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.678
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.678
3c50 ADPRhodopsin kinase / 0.678
3qc9 ADPRhodopsin kinase / 0.678
4ffr ATPUncharacterized protein / 0.677
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.676
1qk3 5GPHypoxanthine-guanine-xanthine phosphoribosyltransferase 2.4.2.22 0.675
2pui ADPMethylthioribose kinase 2.7.1.100 0.674
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.674
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.674
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.673
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.673
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.672
4c3r ACPAurora kinase A 2.7.11.1 0.672
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.671
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.671
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.667
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.667
4dtb GMPAPH(2'')-Id / 0.666
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.665
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.664
4gyi ADPUncharacterized protein / 0.664
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.664
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.663
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.663
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.662
5drd ATPAurora kinase A 2.7.11.1 0.662
3dy8 5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.661
4lv8 ADPRhoptry protein 5 C / 0.661
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.659
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.659
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.658
3dyq PCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.658
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.658
5cvf ATPCasein kinase II subunit alpha 2.7.11.1 0.657
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.656
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.656
5dt3 ATPAurora kinase A 2.7.11.1 0.656
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.655
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.655
4xlv ACPInsulin receptor 2.7.10.1 0.654
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
3cly ACPFibroblast growth factor receptor 2 / 0.652
3dys 5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.652
3r5f ATPD-alanine--D-alanine ligase / 0.652
5dr2 ATPAurora kinase A 2.7.11.1 0.652
3t8o ATPRhodopsin kinase / 0.651
5dos ATPAurora kinase A 2.7.11.1 0.651
3wo1 ADPAlanine--anticapsin ligase / 0.650