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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
4o4e ATP Kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4o4e ATPKinase / 1.025
4o4f ATPKinase / 1.017
3gu7 ADPDeath-associated protein kinase 1 2.7.11.1 0.733
1ol6 ATPAurora kinase A 2.7.11.1 0.725
1jkl ANPDeath-associated protein kinase 1 2.7.11.1 0.720
4gyi ADPUncharacterized protein / 0.719
3gu6 ADPDeath-associated protein kinase 1 2.7.11.1 0.718
3gu5 ANPDeath-associated protein kinase 1 2.7.11.1 0.717
2w4k ADPDeath-associated protein kinase 1 2.7.11.1 0.716
1w2c ANPInositol-trisphosphate 3-kinase A 2.7.1.127 0.715
3nie ANPMitogen-activated protein kinase / 0.711
3f5u ANPDeath-associated protein kinase 1 2.7.11.1 0.710
1jkk ANPDeath-associated protein kinase 1 2.7.11.1 0.709
2w4j ADPDeath-associated protein kinase 1 2.7.11.1 0.709
4xlv ACPInsulin receptor 2.7.10.1 0.709
3dnt ATPSerine/threonine-protein kinase toxin HipA / 0.701
1mq4 ADPAurora kinase A 2.7.11.1 0.700
5awm ANPStress-activated protein kinase JNK 2.7.11.24 0.700
2olc ADPMethylthioribose kinase 2.7.1.100 0.698
5drd ATPAurora kinase A 2.7.11.1 0.697
3tpt ADPSerine/threonine-protein kinase toxin HipA / 0.696
4h3q ANPMitogen-activated protein kinase 1 2.7.11.24 0.695
5iqe GNPBifunctional AAC/APH 2.3.1 0.695
2pul ACPMethylthioribose kinase 2.7.1.100 0.693
2pyw ADPMethylthioribose kinase 2.7.1.100 0.693
4c5b ADPD-alanine--D-alanine ligase B 6.3.2.4 0.692
1tqp ATPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.689
1zth ADPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.689
3o7l ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.689
3bu5 ATPInsulin receptor 2.7.10.1 0.688
1j1b ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.687
1o6y ACPSerine/threonine-protein kinase PknB 2.7.11.1 0.687
2pui ADPMethylthioribose kinase 2.7.1.100 0.687
1ol5 ADPAurora kinase A 2.7.11.1 0.685
4eoo ATPCyclin-dependent kinase 2 2.7.11.22 0.685
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.683
4qny ANPMitogen activated protein kinase, putative / 0.683
2yaa ATPDeath-associated protein kinase 2 / 0.682
3g8c ADPBiotin carboxylase 6.3.4.14 0.682
1w2d ADPInositol-trisphosphate 3-kinase A 2.7.1.127 0.680
3gu4 ANPDeath-associated protein kinase 1 2.7.11.1 0.680
3c50 ADPRhodopsin kinase / 0.679
3w8q AGSDual specificity mitogen-activated protein kinase kinase 1 2.7.12.2 0.679
1tqm ANPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.678
1zp9 ATPRIO-type serine/threonine-protein kinase Rio1 2.7.11.1 0.678
1zar ADPRIO-type serine/threonine-protein kinase Rio2 2.7.11.1 0.677
4ifc ADPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.677
5bpf ADPD-alanine--D-alanine ligase / 0.677
5dn3 ATPAurora kinase A 2.7.11.1 0.677
4o4d ATPKinase / 0.676
3llt ANPProtein serine/threonine kinase-1 / 0.675
3nsz ANPCasein kinase II subunit alpha 2.7.11.1 0.675
2cci ATPCyclin-dependent kinase 2 2.7.11.22 0.674
4aw1 ATP3-phosphoinositide-dependent protein kinase 1 2.7.11.1 0.674
4ux9 ANPMitogen-activated protein kinase 8 2.7.11.24 0.673
4bn1 ADPAurora kinase A 2.7.11.1 0.672
5ce3 ADPProtein kinase YopO / 0.672
5iqa GNPBifunctional AAC/APH 2.3.1 0.671
5iqd GNPBifunctional AAC/APH 2.3.1 0.671
1pyx ANPGlycogen synthase kinase-3 beta 2.7.11.26 0.670
2r7n ADP5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase / 0.670
2rio ADPSerine/threonine-protein kinase/endoribonuclease IRE1 2.7.11.1 0.669
3cly ACPFibroblast growth factor receptor 2 / 0.669
4iad ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.668
4q5h ANPProtein kinase OspG 2.7 0.668
1daw ANPCasein kinase II subunit alpha 2.7.11.1 0.667
2wvj TTPThymidine kinase, cytosolic 2.7.1.21 0.667
4ffl ADPUncharacterized protein / 0.667
4ic7 ANPMitogen-activated protein kinase 7 2.7.11.24 0.667
3q5i ANPProtein kinase, putative / 0.666
5cvf ATPCasein kinase II subunit alpha 2.7.11.1 0.666
2xrw ANPMitogen-activated protein kinase 8 2.7.11.24 0.665
4gvj ADPNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.664
1mru AGSSerine/threonine-protein kinase PknB 2.7.11.1 0.663
2xuu ADPDeath-associated protein kinase 1 2.7.11.1 0.663
4iai ADPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.663
4nif ANPMitogen-activated protein kinase 1 2.7.11.24 0.663
4uak ADPSerine/threonine-protein kinase MRCK beta 2.7.11.1 0.663
1u5r ATPSerine/threonine-protein kinase TAO2 2.7.11.1 0.661
4ej7 ATPAminoglycoside 3'-phosphotransferase AphA1-IAB / 0.661
4iir ANPSerine/threonine-protein kinase PRP4 homolog 2.7.11.1 0.661
4nm5 ADPGlycogen synthase kinase-3 beta 2.7.11.26 0.660
2if8 ADPInositol polyphosphate multikinase 2.7.1.151 0.658
4axd ANPInositol-pentakisphosphate 2-kinase 2.7.1.158 0.658
5e92 ANPTGF-beta receptor type-2 2.7.11.30 0.658
1jnk ANPMitogen-activated protein kinase 10 2.7.11.24 0.657
4oa9 ANPProtein BRASSINOSTEROID INSENSITIVE 1 2.7.10.1 0.657
4hpt ANPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.656
4mv3 ACPBiotin carboxylase 6.3.4.14 0.656
4btj ATPTau-tubulin kinase 1 2.7.11.1 0.654
4wzy ATPMaltokinase 2.7.1.175 0.654
4zs4 ATPMyosin heavy chain kinase A 2.7.11.7 0.654
3x2u ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.653
2jcs TTPDeoxynucleoside kinase / 0.652
4bfm ANPMaternal embryonic leucine zipper kinase 2.7.11.1 0.652
4wb6 ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.652
1phk ATPPhosphorylase b kinase gamma catalytic chain, skeletal muscle/heart isoform 2.7.11.19 0.651
2bkk ADPAminoglycoside 3'-phosphotransferase 2.7.1.95 0.651
3niz ADPCdc2-like CDK2/CDC28 like protein kinase / 0.651
3t9e ADPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2 / 0.650
5dnr ATPAurora kinase A 2.7.11.1 0.650