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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
2zbv ADN Uncharacterized protein

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
2zbv ADNUncharacterized protein / 1.044
2db3 ANPATP-dependent RNA helicase vasa, isoform A 3.6.4.13 0.701
4ube 2FAAdenosine kinase 2.7.1.20 0.691
3akk ADPSerine/threonine-protein kinase CtkA 2.7.11.1 0.686
2v7u SAM5'-fluoro-5'-deoxy-adenosine synthase / 0.678
3vpc ADPGlutamate--LysW ligase ArgX 6.3.2 0.675
3oij SAHRibosomal RNA small subunit methyltransferase NEP1 / 0.671
1r00 SAHAclacinomycin 10-hydroxylase RdmB 4.1.1 0.670
2e41 BTX235aa long hypothetical biotin--[acetyl-CoA-carboxylase] ligase / 0.670
5cns DATRibonucleoside-diphosphate reductase 1 subunit alpha 1.17.4.1 0.668
4dc3 2FAPutative adenosine kinase / 0.667
4wcx SAMBiotin and thiamin synthesis associated / 0.663
1zs6 ADPNucleoside diphosphate kinase 3 2.7.4.6 0.659
3uq6 ADNPutative adenosine kinase / 0.658
3zu0 A12NAD 5'-nucleotidase 3.1.3.5 0.658
4u0o MTALipoyl synthase 2 / 0.657
4pzk SAHPutative tRNA (cytidine(34)-2'-O)-methyltransferase / 0.656
4s1h ADPPyridoxal kinase, putative / 0.656
3r5f ATPD-alanine--D-alanine ligase / 0.654
3rl3 5GPMetallophosphoesterase MPPED2 3.1 0.654
1eq2 ADQADP-L-glycero-D-manno-heptose-6-epimerase / 0.652
3rl4 5GPMetallophosphoesterase MPPED2 3.1 0.652
5jr3 SAHCarminomycin 4-O-methyltransferase DnrK 2.1.1.292 0.652
2zgv ADPPhosphoglycerate kinase 1 2.7.2.3 0.651
4bw9 ANPPyrrolysine--tRNA ligase / 0.651