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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
2q1uNADPutative nucleotide sugar epimerase/ dehydratase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/1.000
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.615
2pzjNADPutative nucleotide sugar epimerase/ dehydratase/0.606
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.585
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.491
1kc1NDPdTDP-4-dehydrorhamnose reductase1.1.1.1330.482
1bil0IURenin3.4.23.150.480
3q43D66M1 family aminopeptidase3.4.110.480
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.477
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.477
1xe55FEPlasmepsin-23.4.23.390.476
1kvrNADUDP-glucose 4-epimerase5.1.3.20.475
1rneC60Renin3.4.23.150.473
1bim0QBRenin3.4.23.150.470
2g1n1IGRenin3.4.23.150.469
2ggsNDPdTDP-4-dehydrorhamnose reductase/0.469
2il2LIXRenin3.4.23.150.468
2rlcCHDCholoylglycine hydrolase3.5.1.240.468
4twrNADNAD binding site:NAD-dependent epimerase/dehydratase:UDP-glucose 4-epimerase/0.467
2gjlFMNNitronate monooxygenase1.13.12.160.466
4uwmFMN3,6-diketocamphane 1,6 monooxygenase1.14.130.466
5b1yNDP3-oxoacyl-[acyl-carrier-protein] reductase/0.466
3te5NAI5'-AMP-activated protein kinase subunit gamma/0.465
2c20NADUDP-glucose 4-epimerase/0.464
3ig6438Urokinase-type plasminogen activator3.4.21.730.464
1s20NAD2,3-diketo-L-gulonate reductase1.1.1.1300.463
3ruaNADUDP-N-acetylglucosamine 4-epimerase/0.463
3ziuLSSLeucyl-tRNA synthetase/0.461
4m83ERYOleandomycin glycosyltransferase2.4.10.460
1h63FMNPentaerythritol tetranitrate reductase/0.458
2c29NAPDihydroflavonol 4-reductase/0.458
2dc1NADProbable L-aspartate dehydrogenase/0.458
3eheNADUDP-glucose 4-epimerase (GalE-1)/0.458
4dbzNDPPutative ketoacyl reductase1.3.10.458
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.457
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.457
3nutSAHPrecorrin-3 methylase/0.457
4hp8NAP2-deoxy-D-gluconate 3-dehydrogenase/0.457
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.456
2g20L1ARenin3.4.23.150.456
2gv8NDPThiol-specific monooxygenase1.14.130.456
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.456
3gqvNAPEnoyl reductase LovC10.456
4df2FMNNADPH dehydrogenase/0.456
2iyfERYOleandomycin glycosyltransferase2.4.10.455
2x06NADL-sulfolactate dehydrogenase/0.455
3wqmB29Diterpene synthase3.1.7.80.455
4dc0NDPPutative ketoacyl reductase1.3.10.455
2ed4NAD4-hydroxyphenylacetate 3-monooxygenase reductase component1.5.1.360.454
2wnsOMPUridine 5'-monophosphate synthase2.4.2.100.454
3mauEXTPutative sphingosine-1-phosphate lyase/0.454
3zw9NADPeroxisomal bifunctional enzyme1.1.1.350.454
4m9aFDAAcyl-CoA dehydrogenase/0.454
2g247IGRenin3.4.23.150.453
2vkeTACTetracycline repressor protein class D/0.453
3m1vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.453
3m1vCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.453
4j75TYMTryptophan--tRNA ligase/0.453
4nbwNADShort-chain dehydrogenase/reductase SDR/0.453
4yxm2BADNA integrity scanning protein DisA/0.453
3lqfNADGalactitol dehydrogenase/0.452
1bwsNDPGDP-L-fucose synthase/0.451
1icqFMN12-oxophytodienoate reductase 11.3.1.420.451
2whqHI6Acetylcholinesterase3.1.1.70.451
2zvbSAHPrecorrin-3 C17-methyltransferase/0.451
4xsvC5PEthanolamine-phosphate cytidylyltransferase2.7.7.140.451
2xveFADPutative flavin-containing monooxygenase/0.450
3p62FMNPentaerythritol tetranitrate reductase/0.450
3tjzGNPADP-ribosylation factor 1/0.450
4b63NAPL-ornithine N(5)-monooxygenase/0.450
4xguADPPutative pachytene checkpoint protein 2/0.450
5czySAMEukaryotic huntingtin interacting protein B/0.449
1g6kNADGlucose 1-dehydrogenase1.1.1.470.448
1x1aSAMC-20 methyltransferase/0.448
2g8yNADHydroxycarboxylate dehydrogenase B/0.448
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.448
3b70NAPEnoyl reductase LovC10.448
3ieuGDPGTPase Era/0.448
3tr05GPGuanylate kinase/0.448
4a6rTA8Probable aminotransferase/0.448
4ambDUDPutative glycosyl transferase/0.448
5jy1NADPutative short-chain dehydrogenase/reductase/0.448
1tehNADAlcohol dehydrogenase class-31.1.1.10.447
1xe65FPPlasmepsin-23.4.23.390.447
1xvaSAMGlycine N-methyltransferase2.1.1.200.447
3atzFMNProstaglandin F2a synthase/0.447
3o0o5ADVitamin B12-dependent ribonucleotide reductase/0.447
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.447
5d3qGDPDynamin-13.6.5.50.447
1bp6UMPThymidylate synthase/0.446
1e6wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.446
1h73ANPHomoserine kinase2.7.1.390.446
1w6hTITPlasmepsin-23.4.23.390.446
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.446
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3hl0NADMaleylacetate reductase/0.446
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.446
4q71FADBifunctional protein PutA/0.446
5ao1DG3Deoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.446
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.445
1qx4FADNADH-cytochrome b5 reductase 31.6.2.20.445
2q85973UDP-N-acetylenolpyruvoylglucosamine reductase1.3.1.980.445
2xuoTZ4Acetylcholinesterase3.1.1.70.445
3f03FMNPentaerythritol tetranitrate reductase/0.445
4h1e10JBeta-secretase 13.4.23.460.445
1g1aNADdTDP-glucose 4,6-dehydratase/0.444
1x1bSAHC-20 methyltransferase/0.444
2a1hGBNBranched-chain-amino-acid aminotransferase, mitochondrial2.6.1.420.444
2dftADPShikimate kinase2.7.1.710.444
2zvcSAHPrecorrin-3 C17-methyltransferase/0.444
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
3ekuCY9Actin-5C/0.444
3qwbNDPProbable quinone oxidoreductase1.6.5.50.444
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.444
4jayNAPUDP-N-acetylenolpyruvoylglucosamine reductase/0.444
1h50FMNPentaerythritol tetranitrate reductase/0.443
1q84TZ4Acetylcholinesterase3.1.1.70.443
2he5NDPAldo-keto reductase family 1 member C211.1.10.443
2hs6FMN12-oxophytodienoate reductase 31.3.1.420.443
3k5c0BIBeta-secretase 13.4.23.460.443
3p8jFMNPentaerythritol tetranitrate reductase/0.443
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.443
4wecNADShort chain dehydrogenase/0.443
1h60STRPentaerythritol tetranitrate reductase/0.442
1k4mNADNicotinate-nucleotide adenylyltransferase2.7.7.180.442
1kp3ATPArgininosuccinate synthase6.3.4.50.442
1qbqHFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.442
1qbqHFPProtein farnesyltransferase subunit beta2.5.1.580.442
2g1s4IGRenin3.4.23.150.442
2oapANPType II secretion system protein (GspE-2)/0.442
2pncCLUPrimary amine oxidase, liver isozyme/0.442
3d91REMRenin3.4.23.150.442
4jtqNAPAldo-keto reductase family 1 member C2/0.442
5bt9NAP3-oxoacyl-(Acyl-carrier-protein) reductase/0.442
5dw60T1Succinyl-CoA:acetate CoA-transferase/0.442
1n2hPAJPantothenate synthetase6.3.2.10.441
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.441
2g1o2IGRenin3.4.23.150.441
2gesCOKPantothenate kinase2.7.1.330.441
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.441
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.441
4eb7PLPCysteine desulfurase IscS 2/0.441
1me6IVSPlasmepsin-23.4.23.390.440
1qbgFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
2ikuLIYRenin3.4.23.150.440
3a3gDLZLumazine protein/0.440
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.440
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
4frkDWDBeta-secretase 13.4.23.460.440
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440