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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
2hen ADP Ephrin type-B receptor 2 2.7.10.1

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.955
1mp8 ADPFocal adhesion kinase 1 2.7.10.2 0.784
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.773
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.770
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.769
2qoq ANPEphrin type-A receptor 3 2.7.10.1 0.763
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.759
2ijm ATPFocal adhesion kinase 1 2.7.10.2 0.749
4f9a ADPCell division cycle 7-related protein kinase 2.7.11.1 0.747
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.744
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.742
3cly ACPFibroblast growth factor receptor 2 / 0.742
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.739
1i44 ACPInsulin receptor 2.7.10.1 0.734
4ax8 ADPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.732
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.731
3g51 ANPRibosomal protein S6 kinase alpha-3 2.7.11.1 0.728
2wqe ADPAurora kinase A 2.7.11.1 0.724
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.722
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.721
4q5h ANPProtein kinase OspG 2.7 0.720
2ijm ADPFocal adhesion kinase 1 2.7.10.2 0.717
2qo9 ANPEphrin type-A receptor 3 2.7.10.1 0.717
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.716
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.716
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.716
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.714
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.714
2olc ADPMethylthioribose kinase 2.7.1.100 0.714
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.713
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.711
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.711
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.710
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.707
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.706
1u54 ACPActivated CDC42 kinase 1 / 0.705
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.704
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.704
1lp4 ANPCasein kinase II subunit alpha 2.7.11.1 0.703
4iay ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.703
2pui ADPMethylthioribose kinase 2.7.1.100 0.702
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.700
5dr2 ATPAurora kinase A 2.7.11.1 0.700
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.699
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.699
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.699
2zoq 5IDMitogen-activated protein kinase 3 2.7.11.24 0.698
3bu5 ATPInsulin receptor 2.7.10.1 0.698
4azw ATPO-antigen chain terminator bifunctional methyltransferase/kinase WbdD / 0.698
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.698
2vuw 5IDSerine/threonine-protein kinase haspin 2.7.11.1 0.697
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.693
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.689
5dt3 ATPAurora kinase A 2.7.11.1 0.689
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.688
2pun ACPMethylthioribose kinase 2.7.1.100 0.688
4dee ADPAurora kinase A 2.7.11.1 0.688
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.688
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.687
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.687
2qoc ANPEphrin type-A receptor 3 2.7.10.1 0.686
4dg3 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.686
3cok ANPSerine/threonine-protein kinase PLK4 2.7.11.21 0.685
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.685
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.684
4n57 ADPAPH(2'')-Id / 0.683
4xw6 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.683
1m0w ANPGlutathione synthetase 6.3.2.3 0.682
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.682
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.682
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.681
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.681
2pul ACPMethylthioribose kinase 2.7.1.100 0.681
4k33 ACPFibroblast growth factor receptor 3 2.7.10.1 0.681
2x86 ADPADP-L-glycero-D-manno-heptose-6-epimerase / 0.680
3orp AGSSerine/threonine protein kinase / 0.680
4ceg ADPAurora kinase A 2.7.11.1 0.680
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.678
5dos ATPAurora kinase A 2.7.11.1 0.678
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.676
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.676
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.675
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.675
4lv7 ADPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.675
4axf ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.674
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.674
4ysj ADPCalmodulin-like domain protein kinase / 0.674
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.673
4bwa N0BPyrrolysine--tRNA ligase / 0.673
5bpf ADPD-alanine--D-alanine ligase / 0.673
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.672
2pml ANPUncharacterized protein / 0.672
4pl3 ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.672
3dfc ANPDeath-associated protein kinase 1 2.7.11.1 0.671
3fzp AGSProtein-tyrosine kinase 2-beta 2.7.10.2 0.671
3mia ANPCyclin-dependent kinase 9 2.7.11.22 0.671
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.671
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.671
4bl1 ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.671
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.671
3bwj ARXcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.670
3idc ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.670
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.670
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.670
3x2v ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.669
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.669
4jqe ANPCasein kinase II subunit alpha 2.7.11.1 0.669
5cvh ADPCasein kinase II subunit alpha 2.7.11.1 0.669
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.668
1zy5 ANPeIF-2-alpha kinase GCN2 / 0.668
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.668
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.668
4yhj AN2G protein-coupled receptor kinase 4 2.7.11.16 0.668
2wtk ANPSTE20-related kinase adapter protein alpha / 0.667
5cvf ATPCasein kinase II subunit alpha 2.7.11.1 0.667
2ehl SAHDiphthine synthase / 0.666
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.666
3pff ADPATP-citrate synthase 2.3.3.8 0.666
4iac ACPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.666
2e7r SAHDiphthine synthase / 0.665
3k5h ATPPhosphoribosyl-aminoimidazole carboxylase / 0.664
4xw4 ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.664
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.663
4c5c ATPD-alanine--D-alanine ligase B 6.3.2.4 0.662
4utd ACPAurora kinase A 2.7.11.1 0.662
2dsh SAHDiphthine synthase / 0.661
2e15 SAHDiphthine synthase / 0.661
2e16 SAHDiphthine synthase / 0.661
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.661
4ct2 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.661
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.661
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
2dwb ANPAurora kinase A 2.7.11.1 0.660
2e17 SAHDiphthine synthase / 0.660
2j0l ANPFocal adhesion kinase 1 2.7.10.2 0.660
3lct ADPALK tyrosine kinase receptor 2.7.10.1 0.660
3ort AGSSerine/threonine protein kinase / 0.660
5l8j ADPAurora kinase A 2.7.11.1 0.660
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.659
1q99 ANPSerine/threonine-protein kinase SKY1 2.7.11.1 0.659
3a8w ATPProtein kinase C iota type 2.7.11.13 0.659
1cdk ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
1jqh ANPInsulin-like growth factor 1 receptor 2.7.10.1 0.658
3fjq ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.658
1mq4 ADPAurora kinase A 2.7.11.1 0.656
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.656
2eeq SAHDiphthine synthase / 0.656
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
4ffm ADPUncharacterized protein / 0.656
1mqb ANPEphrin type-A receptor 2 2.7.10.1 0.655
2dsc APRADP-sugar pyrophosphatase 3.6.1.13 0.655
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.655
4qny ANPMitogen activated protein kinase, putative / 0.655
1pxj CK2Cyclin-dependent kinase 2 2.7.11.22 0.654
2exm ZIPCyclin-dependent kinase 2 2.7.11.22 0.654
3idb ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.654
4dh5 ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
4xlv ACPInsulin receptor 2.7.10.1 0.654
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.653
4f1m ACPProbable serine/threonine-protein kinase roco4 2.7.11.1 0.653
3ehj ACPSensor histidine kinase DesK 2.7.13.3 0.652
3g8d ADPBiotin carboxylase 6.3.4.14 0.652
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
4c3r ACPAurora kinase A 2.7.11.1 0.652
1e1v CMGCyclin-dependent kinase 2 2.7.11.22 0.651
1q97 ATPSerine/threonine-protein kinase SKY1 2.7.11.1 0.651
2b0q ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.651
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.650
5ce3 ADPProtein kinase YopO / 0.650