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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
3o0o TTP Vitamin B12-dependent ribonucleotide reductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
3o0o TTPVitamin B12-dependent ribonucleotide reductase / 1.281
3o0n TTPVitamin B12-dependent ribonucleotide reductase / 1.234
1xje TTPVitamin B12-dependent ribonucleotide reductase / 1.154
3o0q TTPVitamin B12-dependent ribonucleotide reductase / 1.119
1xjk DGTVitamin B12-dependent ribonucleotide reductase / 0.947
1xjj DGTVitamin B12-dependent ribonucleotide reductase / 0.946
3s87 DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.922
3k8t DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.914
2cvx DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.906
3tb9 ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.872
2wgh DTPRibonucleoside-diphosphate reductase large subunit 1.17.4.1 0.852
1peq TTPRibonucleoside-diphosphate reductase 2 subunit alpha 1.17.4.1 0.831
2eud ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.825
3s8c ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.808
1xjg DTPVitamin B12-dependent ribonucleotide reductase / 0.805
2cvu ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.790
3s8a DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.750
2cvv ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.730
1peo DCPRibonucleoside-diphosphate reductase 2 subunit alpha 1.17.4.1 0.689
3rsr N5PRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.685
2cvw TTPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.683
2cvy TTPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.683
3m0e ATPTranscriptional regulator (NtrC family) / 0.677
5im3 DTPRibonucleoside-diphosphate reductase / 0.673
2r1r TTPRibonucleoside-diphosphate reductase 1 subunit alpha 1.17.4.1 0.669
3ryh GTPTubulin alpha chain / 0.668
3lzw NAPFerredoxin--NADP reductase 2 1.18.1.2 0.660
4gvz ADPArginine kinase 2.7.3.3 0.657
4y0x ADPSerine/threonine-protein kinase PknG 2.7.11.1 0.656
2py7 ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.652
3a99 ANPSerine/threonine-protein kinase pim-1 2.7.11.1 0.652
2olq ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.650