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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
5iqb GNP Bifunctional AAC/APH 2.3.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
5iqb GNPBifunctional AAC/APH 2.3.1 1.042
5byl GCPBifunctional AAC/APH 2.3.1 0.917
5iqd GNPBifunctional AAC/APH 2.3.1 0.913
5iqe GNPBifunctional AAC/APH 2.3.1 0.906
5iqh GNPBifunctional AAC/APH 2.3.1 0.900
5iqa GNPBifunctional AAC/APH 2.3.1 0.885
5iqi GNPBifunctional AAC/APH 2.3.1 0.884
5iqf GDPBifunctional AAC/APH 2.3.1 0.870
4ork GDPBifunctional AAC/APH 2.3.1 0.837
3tdw GDPGentamicin resistance protein / 0.820
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.788
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.782
5iqg GDPBifunctional AAC/APH 2.3.1 0.769
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.768
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.767
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.767
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.765
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.763
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.761
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.758
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.755
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.754
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.754
3tdv GDPGentamicin resistance protein / 0.752
1day GNPCasein kinase II subunit alpha 2.7.11.1 0.750
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.746
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.746
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.743
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.740
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.739
2pup ADPMethylthioribose kinase 2.7.1.100 0.738
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.737
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.736
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.735
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.735
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.734
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.732
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.730
4gyi ADPUncharacterized protein / 0.729
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.728
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.728
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.725
5ce3 ADPProtein kinase YopO / 0.724
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.722
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.722
2pyw ADPMethylthioribose kinase 2.7.1.100 0.721
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.721
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.721
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.721
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.721
3cly ACPFibroblast growth factor receptor 2 / 0.720
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.720
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.719
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.718
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.718
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.717
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.717
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.716
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.714
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.714
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.714
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.712
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.712
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.712
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.710
3c4z ADPRhodopsin kinase / 0.709
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.709
2zdg ADPD-alanine--D-alanine ligase / 0.707
4dee ADPAurora kinase A 2.7.11.1 0.707
2pui ADPMethylthioribose kinase 2.7.1.100 0.705
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.705
4utd ACPAurora kinase A 2.7.11.1 0.703
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.702
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.700
3c50 ADPRhodopsin kinase / 0.700
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.698
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.697
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.696
3t8o ATPRhodopsin kinase / 0.696
3bu5 ATPInsulin receptor 2.7.10.1 0.695
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.695
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.695
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.694
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.693
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.693
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.693
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.691
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.691
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.691
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.690
2olc ADPMethylthioribose kinase 2.7.1.100 0.689
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.689
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.689
1m0w ANPGlutathione synthetase 6.3.2.3 0.688
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.688
4n57 ADPAPH(2'')-Id / 0.687
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.682
1g9r UPFLgtC / 0.680
1ga8 UPFLgtC / 0.680
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.680
1ss9 UPFLgtC / 0.677
2pz5 ACPFibroblast growth factor receptor 2 / 0.677
4ysj ADPCalmodulin-like domain protein kinase / 0.676
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.675
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.675
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.672
3dyn PCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A / 0.672
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.669
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.668
2pul ACPMethylthioribose kinase 2.7.1.100 0.668
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.668
4ffm ADPUncharacterized protein / 0.667
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.666
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.665
2py3 ACPFibroblast growth factor receptor 2 / 0.664
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.664
4o4d ATPKinase / 0.664
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.664
5dn3 ATPAurora kinase A 2.7.11.1 0.663
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.662
3qc9 ADPRhodopsin kinase / 0.662
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.662
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.661
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.661
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.661
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.661
4xlv ACPInsulin receptor 2.7.10.1 0.661
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.659
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.659
5dr2 ATPAurora kinase A 2.7.11.1 0.659
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.658
3c4w ATPRhodopsin kinase / 0.658
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.658
5dt3 ATPAurora kinase A 2.7.11.1 0.658
1ol6 ATPAurora kinase A 2.7.11.1 0.657
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.657
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.657
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.657
5dt4 ATPAurora kinase A 2.7.11.1 0.657
1mq4 ADPAurora kinase A 2.7.11.1 0.656
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.654
2pzp ACPFibroblast growth factor receptor 2 / 0.653
4ceg ADPAurora kinase A 2.7.11.1 0.653
4iwx ADPRibosomal protein S6--L-glutamate ligase / 0.653
3v0m 5GWHisto-blood group ABO system transferase / 0.651
3igo ANPCalmodulin-domain protein kinase 1, putative / 0.650
4ffl ADPUncharacterized protein / 0.650