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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
1xjj DGT Vitamin B12-dependent ribonucleotide reductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1xjj DGTVitamin B12-dependent ribonucleotide reductase / 1.205
1xjk DGTVitamin B12-dependent ribonucleotide reductase / 1.088
1xje TTPVitamin B12-dependent ribonucleotide reductase / 0.993
3o0o TTPVitamin B12-dependent ribonucleotide reductase / 0.946
3o0n TTPVitamin B12-dependent ribonucleotide reductase / 0.943
3k8t DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.918
3s87 DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.899
2cvx DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.896
3o0q TTPVitamin B12-dependent ribonucleotide reductase / 0.893
3tb9 ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.886
3s8a DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.845
2wgh DTPRibonucleoside-diphosphate reductase large subunit 1.17.4.1 0.836
2cvu ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.809
2cvv ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.809
1xjg DTPVitamin B12-dependent ribonucleotide reductase / 0.799
1peq TTPRibonucleoside-diphosphate reductase 2 subunit alpha 1.17.4.1 0.795
2eud ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.759
1xjn DTPVitamin B12-dependent ribonucleotide reductase / 0.729
1peo DCPRibonucleoside-diphosphate reductase 2 subunit alpha 1.17.4.1 0.712
2cvy TTPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.692
3n0z 3ATAdenylate cyclase 2 / 0.692
3oab DSTGeranyl diphosphate synthase large subunit / 0.692
3krf DSTGeranyl diphosphate synthase large subunit / 0.677
3zcb ATPAdenosine monophosphate-protein transferase VbhT 2.7.7.n1 0.672
3s8c ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.666
3kmw ATPIntegrin-linked protein kinase 2.7.11.1 0.665
5im3 DTPRibonucleoside-diphosphate reductase / 0.665
3s3t ATPUniversal stress protein / 0.655
3dkv AP5Adenylate kinase / 0.654
3mhy ATPNitrogen regulatory protein P-II 1 / 0.654
1u5a BIKL-lactate dehydrogenase 1.1.1.27 0.652
2oo7 AP5Adenylate kinase / 0.650
2qaj AP5Adenylate kinase / 0.650
3rep ATPIntegrin-linked protein kinase 2.7.11.1 0.650