Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3t8o ATP Rhodopsin kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3t8o ATPRhodopsin kinase / 0.895
3c4w ATPRhodopsin kinase / 0.832
3c50 ADPRhodopsin kinase / 0.831
3qc9 ADPRhodopsin kinase / 0.827
3c4z ADPRhodopsin kinase / 0.826
2pul ACPMethylthioribose kinase 2.7.1.100 0.817
2pun ACPMethylthioribose kinase 2.7.1.100 0.812
1mq4 ADPAurora kinase A 2.7.11.1 0.798
3c4x ATPRhodopsin kinase / 0.794
4ceg ADPAurora kinase A 2.7.11.1 0.792
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.780
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.780
4dee ADPAurora kinase A 2.7.11.1 0.779
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.777
4bn1 ADPAurora kinase A 2.7.11.1 0.775
2pup ADPMethylthioribose kinase 2.7.1.100 0.773
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.769
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.769
5dos ATPAurora kinase A 2.7.11.1 0.765
2pui ADPMethylthioribose kinase 2.7.1.100 0.764
5dt4 ATPAurora kinase A 2.7.11.1 0.763
2dwb ANPAurora kinase A 2.7.11.1 0.760
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.759
2olc ADPMethylthioribose kinase 2.7.1.100 0.755
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.754
3orm AGSSerine/threonine protein kinase / 0.752
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.749
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.748
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.747
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.746
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.744
2pyw ADPMethylthioribose kinase 2.7.1.100 0.743
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.739
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.739
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.739
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.738
2xan ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.737
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.736
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.736
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.736
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.734
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.734
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.733
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.732
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.729
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.728
4iaz ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.727
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.726
5dr2 ATPAurora kinase A 2.7.11.1 0.726
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.725
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.724
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.724
5dt3 ATPAurora kinase A 2.7.11.1 0.724
2pz5 ACPFibroblast growth factor receptor 2 / 0.722
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.722
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.722
2py3 ACPFibroblast growth factor receptor 2 / 0.721
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.721
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.721
5dn3 ATPAurora kinase A 2.7.11.1 0.721
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.719
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.718
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.715
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.715
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.715
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.715
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.714
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.714
3igo ANPCalmodulin-domain protein kinase 1, putative / 0.714
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.713
4lfi GNPCasein kinase II subunit alpha 2.7.11.1 0.710
4utd ACPAurora kinase A 2.7.11.1 0.710
5iqh GNPBifunctional AAC/APH 2.3.1 0.710
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.709
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.708
3cly ACPFibroblast growth factor receptor 2 / 0.708
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.708
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.708
3udz ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.707
5dnr ATPAurora kinase A 2.7.11.1 0.707
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.706
3llt ANPProtein serine/threonine kinase-1 / 0.706
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.704
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.704
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.704
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.704
4xlv ACPInsulin receptor 2.7.10.1 0.704
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.703
2zdg ADPD-alanine--D-alanine ligase / 0.703
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.702
4qny ANPMitogen activated protein kinase, putative / 0.702
3hko ANPCalcium/calmodulin-dependent protein kinase with a kinase domain and 2 calmodulin-like EF hands / 0.701
2qcs ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.700
3nie ANPMitogen-activated protein kinase / 0.700
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.699
5drd ATPAurora kinase A 2.7.11.1 0.699
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.698
2yaa ATPDeath-associated protein kinase 2 / 0.697
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.696
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.696
5iqb GNPBifunctional AAC/APH 2.3.1 0.696
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.695
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.694
4jrn ANPRhoptry kinase family protein / 0.693
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.692
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.692
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.692
1q24 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.691
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.691
4o4f ATPKinase / 0.691
1m0w ANPGlutathione synthetase 6.3.2.3 0.690
2acx ANPG protein-coupled receptor kinase 6 2.7.11.16 0.690
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.690
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.689
4dh7 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.689
4y12 AGSSerine/threonine-protein kinase PknG 2.7.11.1 0.689
4dh3 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.688
4yhj AN2G protein-coupled receptor kinase 4 2.7.11.16 0.687
4wbb ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.685
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.684
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.684
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.684
3q5i ANPProtein kinase, putative / 0.684
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.684
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.683
3a7h ATPSerine/threonine-protein kinase 24 2.7.11.1 0.682
3att ATPPutative aminoglycoside phosphotransferase 2.7.1 0.682
4btj ADPTau-tubulin kinase 1 2.7.11.1 0.682
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.682
4o4d ATPKinase / 0.682
4xw5 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.682
5byl GCPBifunctional AAC/APH 2.3.1 0.682
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.681
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.680
1ol6 ATPAurora kinase A 2.7.11.1 0.680
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.680
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.680
3lmi ATPMyosin heavy chain kinase A 2.7.11.7 0.678
1ir3 ANPInsulin receptor 2.7.10.1 0.677
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.677
4axd ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.677
3a8w ATPProtein kinase C iota type 2.7.11.13 0.675
3mfu ANPPeripheral plasma membrane protein CASK 2.7.11.1 0.675
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.675
4ysj ADPCalmodulin-like domain protein kinase / 0.675
3wow ANPCasein kinase II subunit alpha 2.7.11.1 0.674
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.674
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.674
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.673
3lct ADPALK tyrosine kinase receptor 2.7.10.1 0.672
4cki ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.672
4dn5 AGSMitogen-activated protein kinase kinase kinase 14 2.7.11.25 0.672
2pvr ANPCasein kinase II subunit alpha 2.7.11.1 0.671
3oro AGSSerine/threonine protein kinase / 0.671
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.671
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.671
1u54 ACPActivated CDC42 kinase 1 / 0.670
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.670
3g51 ANPRibosomal protein S6 kinase alpha-3 2.7.11.1 0.670
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.669
1xr1 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.668
4q5j ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.668
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.667
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.667
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
4wh2 ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.666
4x6r ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
2itv ANPEpidermal growth factor receptor 2.7.10.1 0.665
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.665
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.665
4ork GDPBifunctional AAC/APH 2.3.1 0.665
1cm8 ANPMitogen-activated protein kinase 12 / 0.664
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.664
3bu5 ATPInsulin receptor 2.7.10.1 0.663
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.662
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.662
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.662
1jbp ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.660
3wo0 ADPAlanine--anticapsin ligase / 0.660
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.660
5eg3 ACPFibroblast growth factor receptor 2 / 0.660
2vwi ANPSerine/threonine-protein kinase OSR1 2.7.11.1 0.659
3vjo ANPEpidermal growth factor receptor 2.7.10.1 0.659
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.659
4o1p ANPRibonuclease L / 0.659
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.658
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
4aqk ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.657
4c3r ACPAurora kinase A 2.7.11.1 0.657
1q8y ADPSerine/threonine-protein kinase SKY1 2.7.11.1 0.656
2j0l ANPFocal adhesion kinase 1 2.7.10.2 0.656
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.655
3bht MFRCyclin-dependent kinase 2 2.7.11.22 0.654
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.653
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.653
1q99 ANPSerine/threonine-protein kinase SKY1 2.7.11.1 0.652
3dqw AGSProto-oncogene tyrosine-protein kinase Src 2.7.10.2 0.652
4nm0 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.652
4o0u ADNAurora kinase A 2.7.11.1 0.652
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.652
5iqf GDPBifunctional AAC/APH 2.3.1 0.651
5l8k ADPAurora kinase A 2.7.11.1 0.651
2if8 ADPInositol polyphosphate multikinase 2.7.1.151 0.650
2oli IOPBasic phospholipase A2 VRV-PL-VIIIa 3.1.1.4 0.650