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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
3m2vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3m2vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.11.000
3m2uCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.720
3m30COMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.720
3m30COMMethyl-coenzyme M reductase I subunit beta2.8.4.10.720
3m1vCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.679
3m1vCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.679
5a0yCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.620
5a0yCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.620
2g1y5IGRenin3.4.23.150.513
2ikuLIYRenin3.4.23.150.499
3vydVYDRenin3.4.23.150.498
3m2rCOMMethyl-coenzyme M reductase I subunit alpha2.8.4.10.492
3m2rCOMMethyl-coenzyme M reductase I subunit beta2.8.4.10.492
1nupNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.488
2g226IGRenin3.4.23.150.484
1xe65FPPlasmepsin-23.4.23.390.481
2g1r3IGRenin3.4.23.150.480
2g1s4IGRenin3.4.23.150.480
3vyeVYERenin3.4.23.150.480
2lfoGCHFatty acid-binding protein, liver/0.479
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.478
2il2LIXRenin3.4.23.150.477
2i4qUA4Renin3.4.23.150.475
1yb5NAPQuinone oxidoreductase1.6.5.50.473
2ed4NAD4-hydroxyphenylacetate 3-monooxygenase reductase component1.5.1.360.468
2g1o2IGRenin3.4.23.150.468
5eioNAP[LysW]-L-2-aminoadipate 6-phosphate reductase/0.468
2g21L1BRenin3.4.23.150.467
2g247IGRenin3.4.23.150.467
3oagLPQRenin3.4.23.150.467
3qt62P0Mevalonate diphosphate decarboxylase/0.467
3vucHHERenin3.4.23.150.467
2v16C47Renin3.4.23.150.466
3oqkS52Renin3.4.23.150.466
1rneC60Renin3.4.23.150.465
1e6vCOMMethyl-coenzyme M reductase I subunit alpha/0.464
1e6vCOMMethyl coenzyme M reductase, beta subunit/0.464
1xe55FEPlasmepsin-23.4.23.390.464
3d91REMRenin3.4.23.150.464
4loi1YCStimulator of interferon genes protein/0.464
5einNAP[LysW]-L-2-aminoadipate 6-phosphate reductase/0.464
2a94AP0L-lactate dehydrogenase1.1.1.270.463
3p62FMNPentaerythritol tetranitrate reductase/0.463
1bim0QBRenin3.4.23.150.462
2g263LGRenin3.4.23.150.462
2xfsJ01Uncharacterized protein/0.462
4yaoFMNNADPH--cytochrome P450 reductase/0.462
4k6fNAPPutative Acetoacetyl-CoA reductase/0.461
3vyfVYFRenin3.4.23.150.460
2zsaADPPantothenate kinase2.7.1.330.459
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.458
3tr05GPGuanylate kinase/0.458
4emtC2EStimulator of interferon genes protein/0.458
4ipw1G7Mycocyclosin synthase1.14.21.90.458
1nuqNXXNicotinamide/nicotinic acid mononucleotide adenylyltransferase 3/0.457
2hs8FMN12-oxophytodienoate reductase 31.3.1.420.457
4bfzZVZPantothenate kinase2.7.1.330.456
1ooqFMNOxygen-insensitive NAD(P)H nitroreductase/0.455
1t2cNAIL-lactate dehydrogenase1.1.1.270.455
3own3OXRenin3.4.23.150.454
4dptAGSMevalonate diphosphate decarboxylase/0.454
1bil0IURenin3.4.23.150.453
2iko7IGRenin3.4.23.150.453
3aezGDPPantothenate kinase2.7.1.330.453
3tjzGNPADP-ribosylation factor 1/0.453
3g6zA7TRenin3.4.23.150.452
1bwsNDPGDP-L-fucose synthase/0.451
2a5hSAML-lysine 2,3-aminomutase5.4.3.20.451
2fs4PZ1Renin3.4.23.150.451
3a3gDLZLumazine protein/0.451
4gddNAIUDP-galactopyranose mutase/0.451
2anb5GPGuanylate kinase2.7.4.80.450
2gjlFMNNitronate monooxygenase1.13.12.160.450
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.450
1xvaSAMGlycine N-methyltransferase2.1.1.200.449
2gv8NDPThiol-specific monooxygenase1.14.130.449
1adfTADAlcohol dehydrogenase E chain1.1.1.10.448
2vkeTACTetracycline repressor protein class D/0.448
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3e34ED1Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.448
3e34ED1Protein farnesyltransferase subunit beta2.5.1.580.448
4eywL0RCarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.448
4jicFMNGTN Reductase/0.448
1icpFMN12-oxophytodienoate reductase 11.3.1.420.447
2iyfERYOleandomycin glycosyltransferase2.4.10.447
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/0.447
3g70A5TRenin3.4.23.150.447
3gw9VNILanosterol 14-alpha-demethylase/0.447
4ips1G4Mycocyclosin synthase1.14.21.90.447
1l7x700Glycogen phosphorylase, liver form2.4.1.10.446
1nzfUPGDNA beta-glucosyltransferase/0.446
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3k1wBFXRenin3.4.23.150.446
3lqfNADGalactitol dehydrogenase/0.446
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.446
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.445
4driRAPSerine/threonine-protein kinase mTOR2.7.11.10.445
4driRAPPeptidyl-prolyl cis-trans isomerase FKBP55.2.1.80.445
4yp6NAPNicotinamide-nucleotide adenylyltransferase2.7.7.10.445
1h50FMNPentaerythritol tetranitrate reductase/0.444
3u9eCOALmo1369 protein/0.444
4esoNAPPutative oxidoreductase/0.444
4f5yC2EStimulator of interferon genes protein/0.444
4gl4NAIAlcohol dehydrogenase class-3/0.444
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.444
4ke11R6Beta-secretase 13.4.23.460.444
1ep3FMNDihydroorotate dehydrogenase B (NAD(+)), catalytic subunit1.3.1.140.443
1tehNADAlcohol dehydrogenase class-31.1.1.10.443
3axkNDPRibulose bisphosphate carboxylase large chain4.1.1.390.443
3s1dZIRCytokinin dehydrogenase 11.5.99.120.443
4g3jVNTLanosterol 14-alpha-demethylase/0.443
1jedADPSulfate adenylyltransferase/0.442
1x27ASP_TYR_VAL_HIS_PTRTyrosine-protein kinase Lck2.7.10.20.442
2i3gNAPN-acetyl-gamma-glutamyl-phosphate reductase1.2.1.380.442
3ig6438Urokinase-type plasminogen activator3.4.21.730.442
4araC56Acetylcholinesterase3.1.1.70.442
4gdcNDPUDP-galactopyranose mutase/0.442
4mrm2BYGamma-aminobutyric acid type B receptor subunit 1/0.442
1dhrNADDihydropteridine reductase1.5.1.340.441
1qtiGNTAcetylcholinesterase3.1.1.70.441
1w6hTITPlasmepsin-23.4.23.390.441
2ifaFMNUncharacterized protein/0.441
2xuoTZ4Acetylcholinesterase3.1.1.70.441
4bfvZVVPantothenate kinase2.7.1.330.441
1pagFMPAntiviral protein I3.2.2.220.440
1sq5ADPPantothenate kinase2.7.1.330.440
1xl8152Peroxisomal carnitine O-octanoyltransferase2.3.1.1370.440
2d29FADAcyl-CoA dehydrogenase/0.440
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.440
3d4pNADL-lactate dehydrogenase 11.1.1.270.440
3g72A6TRenin3.4.23.150.440
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.440
4f9gC2EStimulator of interferon genes protein/0.440
5kwvANPPantothenate synthetase/0.440