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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
1lwx AZD Nucleoside diphosphate kinase, cytosolic 2.7.4.6

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1lwx AZDNucleoside diphosphate kinase, cytosolic 2.7.4.6 1.121
1ndc TYDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.804
2az3 CDPNucleoside diphosphate kinase / 0.695
2dy9 ADPNucleoside diphosphate kinase 2.7.4.6 0.695
4fkx CDPNucleoside diphosphate kinase / 0.694
1nue GDPNucleoside diphosphate kinase B 2.7.4.6 0.683
4uof DATNucleoside diphosphate kinase / 0.683
3ez3 ZOLFarnesyl pyrophosphate synthase, putative / 0.682
2dxe GDPNucleoside diphosphate kinase 2.7.4.6 0.681
3n0z 3ATAdenylate cyclase 2 / 0.680
4uoh ADPNucleoside diphosphate kinase / 0.670
2hvd ADPNucleoside diphosphate kinase A 2.7.4.6 0.669
4fjm DCPDNA-directed DNA polymerase / 0.668
2cvv ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.665
5erm 210Fusicoccadiene synthase 4.2.3.43 0.664
1khe GCPPhosphoenolpyruvate carboxykinase, cytosolic [GTP] 4.1.1.32 0.661
4fj5 DTPDNA-directed DNA polymerase / 0.661
3ldw IPEFarnesyl pyrophosphate synthase, putative / 0.657
1iyz NDPProbable quinone oxidoreductase / 0.656
2apc UDMAlpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase 2.4.1.101 0.656
2w5a ADPSerine/threonine-protein kinase Nek2 2.7.11.1 0.655
3ldw ZOLFarnesyl pyrophosphate synthase, putative / 0.653
3s87 DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.651
1fnd A2PFerredoxin--NADP reductase, chloroplastic 1.18.1.2 0.650
4bri UNPEctonucleoside triphosphate diphosphohydrolase I / 0.650
4uog YYYNucleoside diphosphate kinase / 0.650