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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
2vp4 DCP Deoxynucleoside kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vp4 DCPDeoxynucleoside kinase / 1.395
2vp2 DGTDeoxynucleoside kinase / 1.117
1zm7 TTPDeoxynucleoside kinase / 1.112
2jcs TTPDeoxynucleoside kinase / 1.107
2vp0 TTPDeoxynucleoside kinase / 1.103
1oe0 TTPDeoxynucleoside kinase / 0.864
2zs9 ADPPantothenate kinase 2.7.1.33 0.731
2zsb ADPPantothenate kinase 2.7.1.33 0.728
2zs8 ADPPantothenate kinase 2.7.1.33 0.725
3af0 GDPPantothenate kinase 2.7.1.33 0.713
3af1 GDPPantothenate kinase 2.7.1.33 0.708
3elb C5PEthanolamine-phosphate cytidylyltransferase 2.7.7.14 0.698
4o9k CMKArabinose 5-phosphate isomerase / 0.682
3qpv ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.678
2i1v ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.672
3ez3 IPEFarnesyl pyrophosphate synthase, putative / 0.667
4fvr ATPTyrosine-protein kinase JAK2 / 0.664
4py0 6ATP2Y purinoceptor 12 / 0.661
1bif AGS6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 4 2.7.1.105 0.658
4xr9 TMPCalS8 / 0.658
1xjg DTPVitamin B12-dependent ribonucleotide reductase / 0.656
1yu9 GNPRas-related protein Rab-4A / 0.655
4b8w GDPGDP-L-fucose synthase 1.1.1.271 0.655
4pxz CLRP2Y purinoceptor 12 / 0.655
2dhf DZFDihydrofolate reductase 1.5.1.3 0.654
1o29 FADFlavin-dependent thymidylate synthase 2.1.1.148 0.653
2ce7 ADPATP-dependent zinc metalloprotease FtsH / 0.653
4ma4 ADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 3 2.7.1.105 0.653
1kws UGAGalactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3 / 0.652
2v9x DUTdCTP deaminase / 0.652
5cpm FNRNADH:flavin oxidoreductase / 0.652
1i2c UPGUDP-sulfoquinovose synthase, chloroplastic 3.13.1.1 0.650