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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
2ejuSAHtRNA (guanine(26)-N(2))-dimethyltransferase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2ejuSAHtRNA (guanine(26)-N(2))-dimethyltransferase/1.000
2ytzSAHtRNA (guanine(26)-N(2))-dimethyltransferase/0.615
3axtSAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase/0.519
3nhpHGZRibosyldihydronicotinamide dehydrogenase [quinone]/0.485
3v8vSAMRibosomal RNA large subunit methyltransferase K/L2.1.1.1730.482
3axsSFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase/0.478
3rl45GPMetallophosphoesterase MPPED23.10.476
1ry0PG2Aldo-keto reductase family 1 member C3/0.474
3v97SAHRibosomal RNA large subunit methyltransferase K/L2.1.1.1730.474
1g60SAMModification methylase MboII2.1.1.720.470
3ssmSAHMycinamicin VI 2''-O-methyltransferase/0.468
1re0AFBADP-ribosylation factor 1/0.465
1re0AFBARF guanine-nucleotide exchange factor 1/0.465
3ox279XRibosyldihydronicotinamide dehydrogenase [quinone]/0.465
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.464
3cqeP91Wee1-like protein kinase2.7.10.20.464
3nfrEWQRibosyldihydronicotinamide dehydrogenase [quinone]/0.464
2pnuENMAndrogen receptor/0.461
4gi40EXQueuine tRNA-ribosyltransferase2.4.2.290.461
2vt4P32Beta-1 adrenergic receptor/0.459
3egvSAHRibosomal protein L11 methyltransferase2.1.10.459
3nhrRZWRibosyldihydronicotinamide dehydrogenase [quinone]/0.459
4n3r2GUTankyrase-12.4.2.300.459
4djy0KRBeta-secretase 13.4.23.460.457
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.457
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.456
4h3j10WBeta-secretase 13.4.23.460.456
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.455
3nw9637Catechol O-methyltransferase2.1.1.60.454
4y1bNAPAntE/0.453
1ve3SAMUncharacterized protein/0.452
3nwe662Catechol O-methyltransferase2.1.1.60.451
3ugrIMNAldo-keto reductase family 1 member C3/0.451
2bf4FMNNADPH--cytochrome P450 reductase/0.450
3d4bDZDNAD-dependent protein deacetylase/0.450
4r5wXAVPoly [ADP-ribose] polymerase 12.4.2.300.450
3ox1695Ribosyldihydronicotinamide dehydrogenase [quinone]/0.449
3ssoSAHMycinamicin VI 2''-O-methyltransferase/0.449
1xi2CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.448
2cleF6FTryptophan synthase alpha chain/0.448
3nwb659Catechol O-methyltransferase2.1.1.60.448
3o73O73Ribosyldihydronicotinamide dehydrogenase [quinone]/0.448
4bfuZVUPantothenate kinase2.7.1.330.448
4e32DWNMethyltransferase/0.448
2aouCQAHistamine N-methyltransferase2.1.1.80.446
2io6330Wee1-like protein kinase2.7.10.20.446
3biz61EWee1-like protein kinase2.7.10.20.446
3c36KAIGlutamate receptor ionotropic, kainate 1/0.446
3gc4AAQQueuine tRNA-ribosyltransferase2.4.2.290.446
1uk0FRMPoly [ADP-ribose] polymerase 12.4.2.300.445
1x8b824Wee1-like protein kinase2.7.10.20.445
4m4821BSodium-dependent dopamine transporter/0.445
1x1dSAHC-20 methyltransferase/0.444
3aiqHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic3.2.1.1820.444
1s3uTQDDihydrofolate reductase1.5.1.30.443
2imkGTXAGAP009194-PA/0.443
3hv3R49Mitogen-activated protein kinase 14/0.443
1e1fPSG4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1, chloroplastic3.2.1.1820.442
1getNAPGlutathione reductase1.8.1.70.441
1uhhCZPAequorin-2/0.441
3gncQQQGlutaryl-CoA dehydrogenase/0.441
2rd678PPoly [ADP-ribose] polymerase 12.4.2.300.440
4nqgCZHMitrocomin/0.440