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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
3t9a ANP Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 1.234
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 1.148
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 1.089
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.980
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.928
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.902
3t99 ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.892
3t54 ATPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.890
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.863
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.853
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.848
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.840
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.840
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.805
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.802
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.802
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.802
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.785
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.780
3rv4 ADPBiotin carboxylase 6.3.4.14 0.778
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.776
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.776
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.776
1m0w ANPGlutathione synthetase 6.3.2.3 0.773
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.766
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.765
2io7 ANPBifunctional glutathionylspermidine synthetase/amidase / 0.761
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.756
2p0a ANPSynapsin-3 / 0.754
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.754
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.751
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.750
4ffr ATPUncharacterized protein / 0.744
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.741
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.741
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.740
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.739
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.738
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.738
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.736
1day GNPCasein kinase II subunit alpha 2.7.11.1 0.732
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.731
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.730
3tw6 ADPPyruvate carboxylase / 0.729
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.728
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.727
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.727
2zdg ADPD-alanine--D-alanine ligase / 0.725
3eth ATPN5-carboxyaminoimidazole ribonucleotide synthase / 0.724
4ffl ADPUncharacterized protein / 0.723
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.719
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.718
1mq4 ADPAurora kinase A 2.7.11.1 0.718
4uxx ACPDiacylglycerol kinase 2.7.1.107 0.718
5iqb GNPBifunctional AAC/APH 2.3.1 0.718
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.716
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.716
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.715
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.712
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.712
1px2 ATPSynapsin-1 / 0.707
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.707
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.707
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.707
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.707
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.706
4dee ADPAurora kinase A 2.7.11.1 0.705
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.705
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.704
5c1p ADPD-alanine--D-alanine ligase / 0.703
5iqh GNPBifunctional AAC/APH 2.3.1 0.703
4ceg ADPAurora kinase A 2.7.11.1 0.702
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.701
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.700
4ffm ADPUncharacterized protein / 0.699
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.697
3r5f ATPD-alanine--D-alanine ligase / 0.696
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.694
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.693
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.692
4o4d ATPKinase / 0.688
1pk8 ATPSynapsin-1 / 0.687
2pup ADPMethylthioribose kinase 2.7.1.100 0.687
4ork GDPBifunctional AAC/APH 2.3.1 0.687
4s26 SAHPhosphomethylpyrimidine synthase, chloroplastic 4.1.99.17 0.685
3ufx GDPSuccinate--CoA ligase [GDP-forming] subunit beta / 0.684
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.684
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.683
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.683
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.683
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.682
3bu5 ATPInsulin receptor 2.7.10.1 0.679
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.679
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.679
5byl GCPBifunctional AAC/APH 2.3.1 0.679
2hgs ADPGlutathione synthetase 6.3.2.3 0.677
1cm8 ANPMitogen-activated protein kinase 12 / 0.676
2pz5 ACPFibroblast growth factor receptor 2 / 0.676
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.676
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.675
4mkf AP5Adenylate kinase / 0.675
1dv2 ATPBiotin carboxylase 6.3.4.14 0.674
4gyi ADPUncharacterized protein / 0.674
3wo1 ADPAlanine--anticapsin ligase / 0.672
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.670
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.670
3wnz ADPAlanine--anticapsin ligase / 0.670
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.669
4wh3 ATPN-acetylhexosamine 1-kinase 2.7.1.162 0.668
4ysj ADPCalmodulin-like domain protein kinase / 0.666
1aux AGSSynapsin-1 / 0.664
3g8d ADPBiotin carboxylase 6.3.4.14 0.664
3wo0 ADPAlanine--anticapsin ligase / 0.663
2qaj AP5Adenylate kinase / 0.662
2x0q ATPAlcaligin biosynthesis protein / 0.662
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.662
4zme ADNMyosin heavy chain kinase A 2.7.11.7 0.662
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.661
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.660
3pff ADPATP-citrate synthase 2.3.3.8 0.658
5iqa GNPBifunctional AAC/APH 2.3.1 0.657
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.656
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.656
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.655
1ss9 UPFLgtC / 0.654
3gub GUBDeath-associated protein kinase 1 2.7.11.1 0.653
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.653
4zgn ATPCell division cycle protein 123 / 0.653
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.651
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.650
4mv3 ACPBiotin carboxylase 6.3.4.14 0.650