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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
1xjg DTP Vitamin B12-dependent ribonucleotide reductase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1xjg DTPVitamin B12-dependent ribonucleotide reductase / 1.095
1xjn DTPVitamin B12-dependent ribonucleotide reductase / 0.805
3o0o TTPVitamin B12-dependent ribonucleotide reductase / 0.805
1xje TTPVitamin B12-dependent ribonucleotide reductase / 0.800
1xjj DGTVitamin B12-dependent ribonucleotide reductase / 0.799
3k8t DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.787
3o0q TTPVitamin B12-dependent ribonucleotide reductase / 0.786
2cvu ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.772
1xjk DGTVitamin B12-dependent ribonucleotide reductase / 0.764
2wgh DTPRibonucleoside-diphosphate reductase large subunit 1.17.4.1 0.755
2cvx DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.752
3s87 DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.741
2cvy TTPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.730
2cvv ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.715
3tb9 ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.705
3o0n TTPVitamin B12-dependent ribonucleotide reductase / 0.704
2eud ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.697
5im3 DTPRibonucleoside-diphosphate reductase / 0.697
2cvw TTPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.671
3s8a DGTRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.671
1peo DCPRibonucleoside-diphosphate reductase 2 subunit alpha 1.17.4.1 0.664
2vp4 DCPDeoxynucleoside kinase / 0.656
3s8c ANPRibonucleoside-diphosphate reductase large chain 1 1.17.4.1 0.656