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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
3akk ADP Serine/threonine-protein kinase CtkA 2.7.11.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 1.108
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.862
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.805
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.803
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.781
3akl ANPSerine/threonine-protein kinase CtkA 2.7.11.1 0.780
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.764
2olc ADPMethylthioribose kinase 2.7.1.100 0.762
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.745
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.744
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.743
5dos ATPAurora kinase A 2.7.11.1 0.741
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.740
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.736
5dr2 ATPAurora kinase A 2.7.11.1 0.735
3qc9 ADPRhodopsin kinase / 0.733
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.732
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.729
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.728
2pyw ADPMethylthioribose kinase 2.7.1.100 0.728
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.727
2pui ADPMethylthioribose kinase 2.7.1.100 0.727
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.727
3c4z ADPRhodopsin kinase / 0.726
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.725
1z2n ADPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.724
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.724
5dt4 ATPAurora kinase A 2.7.11.1 0.721
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.719
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.718
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.718
4ceg ADPAurora kinase A 2.7.11.1 0.718
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.718
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.715
4ffl ADPUncharacterized protein / 0.715
1mq4 ADPAurora kinase A 2.7.11.1 0.714
1z2p ACPInositol-tetrakisphosphate 1-kinase 2.7.1.134 0.714
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.714
4ysj ADPCalmodulin-like domain protein kinase / 0.714
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.713
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.713
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.713
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.712
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.711
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.710
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.710
4q4c ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.710
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.708
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.708
2dwb ANPAurora kinase A 2.7.11.1 0.708
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.708
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.708
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.707
2pul ACPMethylthioribose kinase 2.7.1.100 0.707
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.706
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.705
1iah ADPTransient receptor potential cation channel subfamily M member 7 2.7.11.1 0.704
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.704
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.704
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.702
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.700
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.700
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
5l8l ADPAurora kinase A 2.7.11.1 0.700
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.699
3lla ACPMyosin heavy chain kinase A 2.7.11.7 0.698
3lmh ADPMyosin heavy chain kinase A 2.7.11.7 0.698
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.698
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.698
5dmz ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.697
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.696
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.695
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.695
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.695
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.694
4o4d ATPKinase / 0.694
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.693
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.693
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.693
1px2 ATPSynapsin-1 / 0.692
1t36 ADPCarbamoyl-phosphate synthase large chain / 0.692
3nie ANPMitogen-activated protein kinase / 0.692
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.692
2zdg ADPD-alanine--D-alanine ligase / 0.691
3c50 ADPRhodopsin kinase / 0.691
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.691
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.691
2pz5 ACPFibroblast growth factor receptor 2 / 0.690
3pff ADPATP-citrate synthase 2.3.3.8 0.690
3wnz ADPAlanine--anticapsin ligase / 0.690
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.690
4qny ANPMitogen activated protein kinase, putative / 0.690
5dt3 ATPAurora kinase A 2.7.11.1 0.690
2io8 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.689
4dee ADPAurora kinase A 2.7.11.1 0.689
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.688
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4utd ACPAurora kinase A 2.7.11.1 0.687
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.686
2zbv ADNUncharacterized protein / 0.686
3rv4 ADPBiotin carboxylase 6.3.4.14 0.686
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.686
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.686
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.684
3t8o ATPRhodopsin kinase / 0.684
4mwh ATPCasein kinase II subunit alpha 2.7.11.1 0.684
1csn ATPCasein kinase I homolog 1 2.7.11.1 0.683
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.683
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.683
4ffr ATPUncharacterized protein / 0.683
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.683
4o4e ATPKinase / 0.683
4o4f ATPKinase / 0.683
1a9x ADPCarbamoyl-phosphate synthase large chain / 0.682
3bu5 ATPInsulin receptor 2.7.10.1 0.682
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.682
5iqf GDPBifunctional AAC/APH 2.3.1 0.682
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.681
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.680
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.680
5iqh GNPBifunctional AAC/APH 2.3.1 0.680
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.679
4ix5 ANPUncharacterized protein / 0.679
5drd ATPAurora kinase A 2.7.11.1 0.679
1pk8 ATPSynapsin-1 / 0.678
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.678
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.678
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.678
4xlv ACPInsulin receptor 2.7.10.1 0.678
2py3 ACPFibroblast growth factor receptor 2 / 0.675
3g8c ADPBiotin carboxylase 6.3.4.14 0.675
3t9d ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.675
4mv3 ACPBiotin carboxylase 6.3.4.14 0.675
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.675
3g8d ADPBiotin carboxylase 6.3.4.14 0.674
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.674
5byl GCPBifunctional AAC/APH 2.3.1 0.674
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.673
3cly ACPFibroblast growth factor receptor 2 / 0.673
3dqw AGSProto-oncogene tyrosine-protein kinase Src 2.7.10.2 0.673
3t9f ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.673
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.672
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.672
5iqb GNPBifunctional AAC/APH 2.3.1 0.672
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.671
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.671
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.671
4zgn ATPCell division cycle protein 123 / 0.671
5ce3 ADPProtein kinase YopO / 0.671
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.670
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.669
2vp0 TTPDeoxynucleoside kinase / 0.668
3c4w ATPRhodopsin kinase / 0.668
3c4x ATPRhodopsin kinase / 0.668
5dn3 ATPAurora kinase A 2.7.11.1 0.668
1jdb ADPCarbamoyl-phosphate synthase large chain / 0.667
1aux AGSSynapsin-1 / 0.666
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.666
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.666
5eg3 ACPFibroblast growth factor receptor 2 / 0.666
5c1o ANPD-alanine--D-alanine ligase / 0.665
2pun ACPMethylthioribose kinase 2.7.1.100 0.664
3ews ADPATP-dependent RNA helicase DDX19B 3.6.4.13 0.664
3tdw GDPGentamicin resistance protein / 0.664
4nzo ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.664
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.664
4y12 AGSSerine/threonine-protein kinase PknG 2.7.11.1 0.664
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.662
3t9a ANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.662
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.662
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.662
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.661
3lfz ADPUncharacterized protein MJ1225 / 0.661
4gyi ADPUncharacterized protein / 0.661
1vc9 ATPDiadenosine hexaphosphate hydrolase 3.6.1.61 0.660
3hko ANPCalcium/calmodulin-dependent protein kinase with a kinase domain and 2 calmodulin-like EF hands / 0.660
2pzp ACPFibroblast growth factor receptor 2 / 0.659
2hgs ADPGlutathione synthetase 6.3.2.3 0.658
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.657
5dnr ATPAurora kinase A 2.7.11.1 0.657
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.656
2w5b AGSSerine/threonine-protein kinase Nek2 2.7.11.1 0.656
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.655
4pxz CLRP2Y purinoceptor 12 / 0.654
4riy ANPReceptor tyrosine-protein kinase erbB-3 2.7.10.1 0.654
4jr7 GNPCasein kinase II subunit alpha 2.7.11.1 0.653
4pl3 ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.653
2pup ADPMethylthioribose kinase 2.7.1.100 0.652
3a8t ATPAdenylate isopentenyltransferase / 0.652
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
4jrn ANPRhoptry kinase family protein / 0.652
5l8j ADPAurora kinase A 2.7.11.1 0.652
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.651
4wzy ATPMaltokinase 2.7.1.175 0.651
5c1p ADPD-alanine--D-alanine ligase / 0.651
5e9e ANPMyosin heavy chain kinase A 2.7.11.7 0.651
2io9 ADPBifunctional glutathionylspermidine synthetase/amidase / 0.650
4pjj ADPUnconventional myosin-VI / 0.650