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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
4dh3 ATP cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.284
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.179
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.136
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.125
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.111
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.071
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.058
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.037
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.026
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.023
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 1.023
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.990
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.954
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.938
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.922
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.909
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.896
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.892
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.887
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.885
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.857
4ib3 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.853
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.824
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.821
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.821
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.819
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.804
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.788
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.779
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.777
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.776
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.771
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.766
3c4z ADPRhodopsin kinase / 0.758
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.758
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.757
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.757
4ysj ADPCalmodulin-like domain protein kinase / 0.757
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.750
3ori AGSSerine/threonine protein kinase / 0.746
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.746
4dee ADPAurora kinase A 2.7.11.1 0.746
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.744
3qc9 ADPRhodopsin kinase / 0.742
5byl GCPBifunctional AAC/APH 2.3.1 0.740
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.736
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.735
3agl A03cAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.733
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.732
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.731
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.731
3orm AGSSerine/threonine protein kinase / 0.730
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.728
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.728
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.728
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.727
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.727
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.727
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.725
4ceg ADPAurora kinase A 2.7.11.1 0.725
2xan ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.721
4bn1 ADPAurora kinase A 2.7.11.1 0.721
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.719
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.719
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.716
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.715
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.711
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.711
2pyw ADPMethylthioribose kinase 2.7.1.100 0.707
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.707
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.707
2x0q ATPAlcaligin biosynthesis protein / 0.705
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.704
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.701
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.701
3gub GUBDeath-associated protein kinase 1 2.7.11.1 0.700
3hko ANPCalcium/calmodulin-dependent protein kinase with a kinase domain and 2 calmodulin-like EF hands / 0.700
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.700
2pz5 ACPFibroblast growth factor receptor 2 / 0.698
2pml ANPUncharacterized protein / 0.697
5dr2 ATPAurora kinase A 2.7.11.1 0.697
5dt3 ATPAurora kinase A 2.7.11.1 0.697
5dn3 ATPAurora kinase A 2.7.11.1 0.692
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.691
3hrf ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.691
3tdv GDPGentamicin resistance protein / 0.691
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.691
2py3 ACPFibroblast growth factor receptor 2 / 0.690
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.690
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.688
3c50 ADPRhodopsin kinase / 0.688
3t8o ATPRhodopsin kinase / 0.688
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.687
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.686
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.685
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.685
3tdw GDPGentamicin resistance protein / 0.684
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.682
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.682
5ckw ANPUncharacterized protein / 0.682
5iqa GNPBifunctional AAC/APH 2.3.1 0.682
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.681
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.681
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.681
2pzp ACPFibroblast growth factor receptor 2 / 0.679
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.675
5iqe GNPBifunctional AAC/APH 2.3.1 0.675
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.672
2pul ACPMethylthioribose kinase 2.7.1.100 0.672
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.671
3bu5 ATPInsulin receptor 2.7.10.1 0.671
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.671
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.671
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.670
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.670
4pds ANPSerine/threonine-protein kinase RAD53 2.7.12.1 0.670
4zgn ATPCell division cycle protein 123 / 0.670
4qny ANPMitogen activated protein kinase, putative / 0.669
4xlv ACPInsulin receptor 2.7.10.1 0.669
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.668
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.668
4o4d ATPKinase / 0.667
5iqf GDPBifunctional AAC/APH 2.3.1 0.667
1mq4 ADPAurora kinase A 2.7.11.1 0.666
5iqb GNPBifunctional AAC/APH 2.3.1 0.666
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.665
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
3c4w ATPRhodopsin kinase / 0.662
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.662
4ct2 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.661
4ocv ANPAminoglycoside phosphotransferase / 0.661
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.661
1q97 ATPSerine/threonine-protein kinase SKY1 2.7.11.1 0.660
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.660
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.660
5ca0 ACPTubulin tyrosine ligase / 0.660
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.659
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.659
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.659
4n57 ADPAPH(2'')-Id / 0.659
2pup ADPMethylthioribose kinase 2.7.1.100 0.658
4btj ADPTau-tubulin kinase 1 2.7.11.1 0.658
4cki ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.658
2wtk ANPSTE20-related kinase adapter protein alpha / 0.657
3cly ACPFibroblast growth factor receptor 2 / 0.657
4axd ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.657
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.657
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.657
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.656
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.655
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.655
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.655
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.655
5iqd GNPBifunctional AAC/APH 2.3.1 0.655
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.654
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.654
5drd ATPAurora kinase A 2.7.11.1 0.654
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.653
5cb4 ACPTubulin tyrosine ligase / 0.653
4utd ACPAurora kinase A 2.7.11.1 0.652
2vqd AP2Biotin carboxylase 6.3.4.14 0.651
2ydv NECAdenosine receptor A2a / 0.651
4o0w ADNAurora kinase A 2.7.11.1 0.651
4o1p ANPRibonuclease L / 0.651
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.650
3umo ATPATP-dependent 6-phosphofructokinase isozyme 2 2.7.1.11 0.650
4fgr ADPPhosphoribosylaminoimidazole-succinocarboxamide synthase 6.3.2.6 0.650