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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
4eom ATP Cyclin-dependent kinase 2 2.7.11.22

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4eom ATPCyclin-dependent kinase 2 2.7.11.22 0.960
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.819
2b9f ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.752
4ii5 ADPCyclin-dependent kinase 2 2.7.11.22 0.752
4dee ADPAurora kinase A 2.7.11.1 0.750
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.746
4xlv ACPInsulin receptor 2.7.10.1 0.739
4ceg ADPAurora kinase A 2.7.11.1 0.738
4s33 ANPMitogen-activated protein kinase 1 2.7.11.24 0.737
2b9i ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.735
2a19 ANPInterferon-induced, double-stranded RNA-activated protein kinase 2.7.11.1 0.733
5l8k ADPAurora kinase A 2.7.11.1 0.733
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.728
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.727
5dr2 ATPAurora kinase A 2.7.11.1 0.725
2b9j ADPMitogen-activated protein kinase FUS3 2.7.11.24 0.721
2qo7 ANPEphrin type-A receptor 3 2.7.10.1 0.719
1mq4 ADPAurora kinase A 2.7.11.1 0.713
5eg3 ACPFibroblast growth factor receptor 2 / 0.713
4i3z ADPCyclin-dependent kinase 2 2.7.11.22 0.711
1l8t ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.710
1qmz ATPCyclin-dependent kinase 2 2.7.11.22 0.710
4krc AGSCyclin-dependent protein kinase PHO85 2.7.11.22 0.708
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.706
4crs AGSSerine/threonine-protein kinase N2 2.7.11.13 0.704
4n57 ADPAPH(2'')-Id / 0.704
4fl1 ANPTyrosine-protein kinase SYK 2.7.10.2 0.701
2ioa ADPBifunctional glutathionylspermidine synthetase/amidase / 0.700
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.699
1zao ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.698
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.696
1j1c ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.695
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.695
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.694
1gy3 ATPCyclin-dependent kinase 2 2.7.11.22 0.693
1ig1 ANPDeath-associated protein kinase 1 2.7.11.1 0.691
3cly ACPFibroblast growth factor receptor 2 / 0.691
4q5h ANPProtein kinase OspG 2.7 0.691
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.690
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.690
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.690
4fmq ANPMitogen-activated protein kinase 1 2.7.11.24 0.689
2qoq ANPEphrin type-A receptor 3 2.7.10.1 0.687
3vpb ADPGlutamate--LysW ligase ArgX 6.3.2 0.686
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.685
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.685
5dt3 ATPAurora kinase A 2.7.11.1 0.685
2y9q ANPMitogen-activated protein kinase 1 2.7.11.24 0.684
3nie ANPMitogen-activated protein kinase / 0.684
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.683
4nm7 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.683
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.681
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.680
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.680
4r8q ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.680
2phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.679
2pz5 ACPFibroblast growth factor receptor 2 / 0.679
3q1k ADPD-alanine--D-alanine ligase A 6.3.2.4 0.678
1j7l ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.677
1j7u ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.676
2cch ATPCyclin-dependent kinase 2 2.7.11.22 0.676
4c3r ACPAurora kinase A 2.7.11.1 0.676
5ce3 ADPProtein kinase YopO / 0.676
5iqf GDPBifunctional AAC/APH 2.3.1 0.676
3akl ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.675
3bu5 ATPInsulin receptor 2.7.10.1 0.675
4c3p ACPAurora kinase A 2.7.11.1 0.675
3pff ADPATP-citrate synthase 2.3.3.8 0.674
2i8c ADPD-alanine--D-alanine ligase / 0.673
2pyw ADPMethylthioribose kinase 2.7.1.100 0.673
3tm0 ANPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.673
3ung ADPCRISPR system Cmr subunit Cmr2 / 0.673
4qpm ADPMitotic checkpoint serine/threonine-protein kinase BUB1 2.7.11.1 0.673
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.672
2qo9 ANPEphrin type-A receptor 3 2.7.10.1 0.672
3fzp AGSProtein-tyrosine kinase 2-beta 2.7.10.2 0.672
4otp ADPSerine/threonine-protein kinase RIO1 2.7.11.1 0.672
5dos ATPAurora kinase A 2.7.11.1 0.672
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.670
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.670
2hen ADPEphrin type-B receptor 2 2.7.10.1 0.669
3b2t M33Fibroblast growth factor receptor 2 / 0.669
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.669
4b8l A0PAurora kinase B-A 2.7.11.1 0.669
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.669
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.668
4ffr ATPUncharacterized protein / 0.667
4oav ACP2-5A-dependent ribonuclease 3.1.26 0.667
4pds ANPSerine/threonine-protein kinase RAD53 2.7.12.1 0.667
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.666
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.665
1ol6 ATPAurora kinase A 2.7.11.1 0.665
4f99 ADPCell division cycle 7-related protein kinase 2.7.11.1 0.665
4o4d ATPKinase / 0.665
4qny ANPMitogen activated protein kinase, putative / 0.665
3a7j ADPSerine/threonine-protein kinase 24 2.7.11.1 0.664
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.664
3gub GUBDeath-associated protein kinase 1 2.7.11.1 0.663
4gyi ADPUncharacterized protein / 0.663
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.663
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.662
3eth ATPN5-carboxyaminoimidazole ribonucleotide synthase / 0.662
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.662
2wqe ADPAurora kinase A 2.7.11.1 0.661
4iaf ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.661
2wtk ANPSTE20-related kinase adapter protein alpha / 0.660
3i12 ADPD-alanine--D-alanine ligase A 6.3.2.4 0.660
1cm8 ANPMitogen-activated protein kinase 12 / 0.659
4cki ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.659
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.659
3wo1 ADPAlanine--anticapsin ligase / 0.658
5c1p ADPD-alanine--D-alanine ligase / 0.658
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.657
4oau ADP2-5A-dependent ribonuclease 3.1.26 0.657
4ocp ADPN-acetylhexosamine 1-kinase 2.7.1.162 0.657
1jdb ADPCarbamoyl-phosphate synthase large chain / 0.656
3qc9 ADPRhodopsin kinase / 0.656
4dsj DGTDNA polymerase I / 0.656
2pup ADPMethylthioribose kinase 2.7.1.100 0.655
2pzp ACPFibroblast growth factor receptor 2 / 0.654
3fhi ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.654
4fi1 ATPCasein kinase II subunit alpha 2.7.11.1 0.654
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.654
3nyn SGVG protein-coupled receptor kinase 6 2.7.11.16 0.653
4ekk ANPRAC-alpha serine/threonine-protein kinase 2.7.11.1 0.653
4iak ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.653
4jrn ANPRhoptry kinase family protein / 0.653
1o6k ANPRAC-beta serine/threonine-protein kinase 2.7.11.1 0.652
4ckj ADNProto-oncogene tyrosine-protein kinase receptor Ret 2.7.10.1 0.652
4riy ADPEpidermal growth factor receptor 2.7.10.1 0.652
4ffl ADPUncharacterized protein / 0.651
4fg8 ATPCalcium/calmodulin-dependent protein kinase type 1 2.7.11.17 0.651
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.651
4mam A12N5-carboxyaminoimidazole ribonucleotide synthase / 0.650
4ork GDPBifunctional AAC/APH 2.3.1 0.650