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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
2vp2 DGT Deoxynucleoside kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2vp2 DGTDeoxynucleoside kinase / 1.336
2vp0 TTPDeoxynucleoside kinase / 1.188
2jcs TTPDeoxynucleoside kinase / 1.153
1oe0 TTPDeoxynucleoside kinase / 1.131
2vp4 DCPDeoxynucleoside kinase / 1.117
1zm7 TTPDeoxynucleoside kinase / 1.032
2zsa ADPPantothenate kinase 2.7.1.33 0.716
3dkv AP5Adenylate kinase / 0.687
1e1q ADPATP synthase subunit beta, mitochondrial 3.6.3.14 0.681
3rv4 ADPBiotin carboxylase 6.3.4.14 0.668
1sq5 ADPPantothenate kinase 2.7.1.33 0.666
4pjk ADPMyosin-2 heavy chain / 0.665
1ow3 GDPTransforming protein RhoA / 0.664
4nu0 AP5Adenylate kinase / 0.664
4pfp ADPUnconventional myosin-VI / 0.663
1x28 PGUAspartate aminotransferase 2.6.1.1 0.661
2jas DTPDeoxyguanosine kinase / 0.659
2c9c ATPPsp operon transcriptional activator / 0.658
2whx ADPGenome polyprotein 3.4.21.91 0.658
2olr ATPPhosphoenolpyruvate carboxykinase (ATP) / 0.657
3a6p GTPGTP-binding nuclear protein Ran / 0.657
1tdc UMPThymidylate synthase / 0.655
4nyj GNPGTPase HRas / 0.655
4xsg GSPTransforming protein RhoA / 0.654
3m0e ATPTranscriptional regulator (NtrC family) / 0.653
2dr3 ADPUPF0273 protein PH0284 / 0.652
2pg2 ADPKinesin-like protein KIF11 / 0.652
2y65 ADPKinesin heavy chain / 0.652
1xbt TTPThymidine kinase, cytosolic 2.7.1.21 0.651
2qaj AP5Adenylate kinase / 0.651