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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
4d965PAD-cysteine desulfhydrase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4d965PAD-cysteine desulfhydrase/1.000
4d9eLCSD-cysteine desulfhydrase/0.611
4d9fDCSD-cysteine desulfhydrase/0.597
1s20NAD2,3-diketo-L-gulonate reductase1.1.1.1300.498
3h3sH15Collagen type IV alpha-3-binding protein/0.497
4du82P0Mevalonate diphosphate decarboxylase/0.492
1obnASVIsopenicillin N synthase1.21.3.10.491
2g8yNADHydroxycarboxylate dehydrogenase B/0.490
3hl0NADMaleylacetate reductase/0.490
1xddAAYIntegrin alpha-L/0.486
4bfxZVXPantothenate kinase2.7.1.330.486
2w6qOA5Biotin carboxylase6.3.4.140.483
1j0b5PAPutative 1-aminocyclopropane-1-carboxylate deaminase3.5.99.70.479
1vbiNADMalate/L-lactate dehydrogenase family protein/0.479
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.479
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.478
4lxa1YSBeta-secretase 13.4.23.460.478
2gevCOKPantothenate kinase2.7.1.330.477
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.477
1c7oPPGHemolysin/0.475
2x06NADL-sulfolactate dehydrogenase/0.475
2i7pACOPantothenate kinase 32.7.1.330.474
4bftZVTPantothenate kinase2.7.1.330.474
1x1bSAHC-20 methyltransferase/0.473
3b1dPLSBetaC-S lyase/0.473
4ubvCOASteroid 3-ketoacyl-CoA thiolase/0.472
1pwyAC2Purine nucleoside phosphorylase2.4.2.10.471
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.471
2c29NAPDihydroflavonol 4-reductase/0.470
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/0.470
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.470
4e32DWNMethyltransferase/0.470
2fxuBIDActin, alpha skeletal muscle/0.469
4s1iPLPPyridoxal kinase, putative/0.469
1x1cSAHC-20 methyltransferase/0.468
2vyqFADFerredoxin--NADP reductase1.18.1.20.468
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.468
2pzjNADPutative nucleotide sugar epimerase/ dehydratase/0.467
2w6oOA3Biotin carboxylase6.3.4.140.466
3iqhTYR_ASP_ILECysteine synthase2.5.1.470.466
3jzdNADMaleylacetate reductase/0.466
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.465
2qs3UBEGlutamate receptor ionotropic, kainate 1/0.464
4f7iNAD3-isopropylmalate dehydrogenase1.1.1.850.464
4o1mNADEnoyl-acyl carrier reductase/0.464
4rww2BALmo2692 protein/0.464
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.463
1g1aNADdTDP-glucose 4,6-dehydratase/0.463
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.463
3tzaTZGGlutamate receptor 2/0.463
4oztP1AEcdysone receptor, putative/0.463
3q43D66M1 family aminopeptidase3.4.110.462
4lutDCSAlanine racemase/0.462
4n3l2FNProthrombin3.4.21.50.462
5irnADPNucleotide binding oligomerization domain containing 2/0.462
1kr2TADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.461
1opmIYGPeptidyl-glycine alpha-amidating monooxygenase1.14.17.30.461
2ilvC5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.461
2q1wNADPutative nucleotide sugar epimerase/ dehydratase/0.461
3clsFADElectron transfer flavoprotein subunit alpha/0.461
3qfrFMNNADPH--cytochrome P450 reductase/0.461
1a9zUPGUDP-glucose 4-epimerase5.1.3.20.460
3c27DKKProthrombin3.4.21.50.460
4bfzZVZPantothenate kinase2.7.1.330.460
4dc0NDPPutative ketoacyl reductase1.3.10.460
1y7lASN_LEU_ASN_ILECysteine synthase2.5.1.470.459
2pncCLUPrimary amine oxidase, liver isozyme/0.459
2x91LPRAngiotensin-converting enzyme3.4.15.10.459
4b4vL34Bifunctional protein FolD/0.459
4e2yJHZMethyltransferase/0.459
4jtqNAPAldo-keto reductase family 1 member C2/0.459
1xseNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.458
1yhjR6CPyridoxal kinase2.7.1.350.457
3qwbNDPProbable quinone oxidoreductase1.6.5.50.457
3r96ACOMccE protein/0.457
1u1gBBBUridine phosphorylase2.4.2.30.456
2fw3BUICarnitine O-palmitoyltransferase 2, mitochondrial2.3.1.210.456
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.456
4c73TLH3-oxoacyl-ACP synthase/0.456
4eb7PLPCysteine desulfurase IscS 2/0.456
4nauAGSPhosphopantetheine adenylyltransferase/0.456
2fjdSFDAdenylylsulfate reductase, subunit A (AprA)/0.455
3h06VBPGlutamate receptor 2/0.455
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.455
4nesUD1UDP-N-acetylglucosamine 2-epimerase5.1.3.140.455
1h60STRPentaerythritol tetranitrate reductase/0.454
2zevB71Geranylgeranyl pyrophosphate synthase/0.454
3af1GDPPantothenate kinase2.7.1.330.454
4oe4NADDelta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial1.2.1.880.454
2pk3A2RGDP-6-deoxy-D-mannose reductase/0.453
2zatNAPDehydrogenase/reductase SDR family member 41.1.1.1840.453
3a1cACPProbable copper-exporting P-type ATPase A3.6.3.540.453
3h3r14HCollagen type IV alpha-3-binding protein/0.453
3jpuTY4Transcriptional activator protein LasR/0.453
3q44D50M1 family aminopeptidase3.4.110.453
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.453
4a312CBGlycylpeptide N-tetradecanoyltransferase/0.453
4eb5PLPCysteine desulfurase IscS 2/0.453
2ea2F77Methionine aminopeptidase 2/0.452
2npxNADNADH peroxidase1.11.1.10.452
3ekuCY9Actin-5C/0.452
4fncHMUG/T mismatch-specific thymine DNA glycosylase3.2.2.290.452
1ozpACOMycothiol acetyltransferase2.3.1.1890.451
1qbqHFPProtein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha/0.451
1qbqHFPProtein farnesyltransferase subunit beta2.5.1.580.451
3fr5I4AFatty acid-binding protein, adipocyte/0.451
3iqiASN_GLU_ASN_ILECysteine synthase2.5.1.470.451
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.451
3phiNDPShikimate dehydrogenase (NADP(+))/0.451
3phjDHKShikimate dehydrogenase (NADP(+))/0.451
3tneRITCandidapepsin-13.4.23.240.451
4g7gVFVLanosterol 14-alpha-demethylase/0.451
4ips1G4Mycocyclosin synthase1.14.21.90.451
4z24FADPutative GMC-type oxidoreductase R13510.451
1oxoIK2Aspartate aminotransferase, mitochondrial2.6.1.10.450
1qiqACCIsopenicillin N synthase1.21.3.10.450
2a2dANPN-acetylgalactosamine kinase2.7.1.1570.450
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.450
3d3wNAPL-xylulose reductase1.1.1.100.450
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
3fstFAD5,10-methylenetetrahydrofolate reductase1.5.1.200.450
4ambDUDPutative glycosyl transferase/0.450
4dpy2P0Mevalonate diphosphate decarboxylase/0.450
1gg5E09NAD(P)H dehydrogenase [quinone] 11.6.5.20.449
1k4hAPQQueuine tRNA-ribosyltransferase2.4.2.290.449
1kbo340NAD(P)H dehydrogenase [quinone] 11.6.5.20.449
2v5uFMNFlavodoxin/0.449
3sf6FDAGlutaryl-CoA dehydrogenase/0.449
3vilSA0Beta-glucosidase/0.449
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.449
4b63NAPL-ornithine N(5)-monooxygenase/0.449
4du6GTPGTP cyclohydrolase 1/0.449
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
1b87ACOAac(6')-Ii protein/0.447
1gky5GPGuanylate kinase2.7.4.80.447
2b3dFADModulator of drug activity B/0.447
2ea4F79Methionine aminopeptidase 2/0.447
3af0GDPPantothenate kinase2.7.1.330.447
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.447
3i8p8403-oxoacyl-[acyl-carrier-protein] synthase 22.3.1.1790.447
3tjzGNPADP-ribosylation factor 1/0.447
3u5ySCGRaucaffricine-O-beta-D-glucosidase3.2.1.1250.447
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.447
4bfvZVVPantothenate kinase2.7.1.330.447
4obuPLPPyridoxal-dependent decarboxylase domain protein/0.447
5fm7ADPRuvB-like helicase/0.447
1fcbFMNCytochrome b2, mitochondrial1.1.2.30.446
1yw8A75Methionine aminopeptidase 2/0.446
2futH1SHeparin and heparin-sulfate lyase/0.446
3ai0PNWBeta-glucosidase/0.446
3dhcCYKN-acyl homoserine lactonase AiiA3.1.1.810.446
3up5FAD2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.446
4djaFAD(6-4) photolyase/0.446
4uunNAIL-lactate dehydrogenase/0.446
2a57CRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.445
2dxiATPGlutamate--tRNA ligase6.1.1.170.445
2hpvFMNFMN-dependent NADH-azoreductase1.70.445
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.445
3vx4ATPPutative ABC transporter, ATP-binding protein ComA/0.445
3x21FMNOxygen-insensitive NAD(P)H nitroreductase/0.445
4a87NARMajor pollen allergen Bet v 1-A/0.445
4bv9NDPKetimine reductase mu-crystallin1.5.1.250.445
4mvcCDCCholine-phosphate cytidylyltransferase A/0.445
1r58AO5Methionine aminopeptidase 2/0.444
2q1sNAIPutative nucleotide sugar epimerase/ dehydratase/0.444
2xb9XNW3-dehydroquinate dehydratase4.2.1.100.444
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.444
3ndjJHZMethyltransferase/0.444
3nytULPUDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.444
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
5jscFADPutative acyl-CoA dehydrogenase/0.444
1jnrFADAdenylylsulfate reductase, subunit A (AprA)/0.443
1t2cNAIL-lactate dehydrogenase1.1.1.270.443
2il2LIXRenin3.4.23.150.443
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.443
2rlcCHDCholoylglycine hydrolase3.5.1.240.443
2wjoQUDBeta-secretase 13.4.23.460.443
3b4yF42F420-dependent glucose-6-phosphate dehydrogenase/0.443
3buvNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.443
3g1rNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.443
3gr8FMNNADPH dehydrogenase/0.443
3i0pNADMalate dehydrogenase, putative/0.443
3n87N873-dehydroquinate dehydratase4.2.1.100.443
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.443
4bfuZVUPantothenate kinase2.7.1.330.443
4do30LAFatty-acid amide hydrolase 13.5.1.990.443
4j7gTRHPCZA361.3/0.443
4m83ERYOleandomycin glycosyltransferase2.4.10.443
4mv1ADPBiotin carboxylase6.3.4.140.443
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.443
1drhNAPDihydrofolate reductase1.5.1.30.442
1lbcCYZGlutamate receptor 2/0.442
1p0hCOAMycothiol acetyltransferase2.3.1.1890.442
1rzuADPGlycogen synthase 12.4.1.210.442
1z7yAA5Cysteine synthase 12.5.1.470.442
2bt4CA23-dehydroquinate dehydratase4.2.1.100.442
2ejzSAHDiphthine synthase/0.442
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.442
3aho3A2Oligopeptidase/0.442
3f03FMNPentaerythritol tetranitrate reductase/0.442
3p62FMNPentaerythritol tetranitrate reductase/0.442
3q9bB3NAcetylpolyamine amidohydrolase/0.442
3ty3GGGHomoisocitrate dehydrogenase1.1.1.870.442
4b1rITCTetracycline repressor protein class D/0.442
4df2FMNNADPH dehydrogenase/0.442
4f9gC2EStimulator of interferon genes protein/0.442
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.442
4knzCB3Thymidylate synthase/0.442
4kp71UQ1-deoxy-D-xylulose 5-phosphate reductoisomerase, apicoplastic1.1.1.2670.442
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.442
4pzrCOAHistone acetyltransferase p300/0.442
4rgqNDPGlycerol-1-phosphate dehydrogenase [NAD(P)+]/0.442
4xbjIN5Alanine racemase, biosynthetic/0.442
4y1bNAPAntE/0.442
1fmlRTLRetinol dehydratase/0.441
1ja1FMNNADPH--cytochrome P450 reductase/0.441
1xu7CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.441
2po7CHDFerrochelatase, mitochondrial4.99.1.10.441
2zbaZBATrichothecene 3-O-acetyltransferase/0.441
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.441
4ipw1G7Mycocyclosin synthase1.14.21.90.441
1h63FMNPentaerythritol tetranitrate reductase/0.440
1jueFMNDihydroorotate dehydrogenase A (fumarate)1.3.98.10.440
1kvkATPMevalonate kinase2.7.1.360.440
1udaUFGUDP-glucose 4-epimerase5.1.3.20.440
2abbFMNPentaerythritol tetranitrate reductase/0.440
2iibC5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.440
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
3kpbSAMUncharacterized protein MJ0100/0.440
3rdqDTBStreptavidin/0.440
3rpeFADPutative modulator of drug activity/0.440
4a2aATPCell division protein FtsA/0.440