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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
3ohoZ79Stromelysin-13.4.24.17

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
3ohoZ79Stromelysin-13.4.24.171.000
1uttCP8Macrophage metalloelastase3.4.24.650.633
4dpeNGHStromelysin-13.4.24.170.633
1g05BBHStromelysin-13.4.24.170.632
2d1oFA4Stromelysin-13.4.24.170.632
4g9lNGHStromelysin-13.4.24.170.625
3ljgEEFMacrophage metalloelastase3.4.24.650.621
1g49111Stromelysin-13.4.24.170.619
3zxhE41Collagenase 33.4.240.618
1b8yIN7Stromelysin-13.4.24.170.611
2d1nFA4Collagenase 33.4.240.608
1bzsBSINeutrophil collagenase3.4.24.340.602
2oxwILE_ALA_GLYMacrophage metalloelastase3.4.24.650.601
1d8fSPIStromelysin-13.4.24.170.599
1slnINHStromelysin-13.4.24.170.597
1caqDPSStromelysin-13.4.24.170.595
1gkcNFHMatrix metalloproteinase-93.4.24.350.595
1cizDPSStromelysin-13.4.24.170.594
3kec3KECollagenase 33.4.240.594
1g4kHQQStromelysin-13.4.24.170.592
4ja1NGHStromelysin-13.4.24.170.589
1d7xSPCStromelysin-13.4.24.170.588
4guyKLJMacrophage metalloelastase3.4.24.650.587
2ow06MRMatrix metalloproteinase-93.4.24.350.585
3i7i518Collagenase 33.4.240.584
1bqoN25Stromelysin-13.4.24.170.582
1hv5RXPStromelysin-33.4.240.580
2wo8077Macrophage metalloelastase3.4.24.650.579
2ow17MRMatrix metalloproteinase-93.4.24.350.578
3tskQEGMacrophage metalloelastase3.4.24.650.578
3lilEEAMacrophage metalloelastase3.4.24.650.577
1d8mBBHStromelysin-13.4.24.170.575
1rm8BATMatrix metalloproteinase-163.4.240.575
2wo8023Macrophage metalloelastase3.4.24.650.575
1zvxFINNeutrophil collagenase3.4.24.340.573
2woa023Macrophage metalloelastase3.4.24.650.573
2hu637AMacrophage metalloelastase3.4.24.650.572
3o2x3O2Collagenase 33.4.240.571
2w0dCGSMacrophage metalloelastase3.4.24.650.569
2ovz5MRMatrix metalloproteinase-93.4.24.350.566
2wo9068Macrophage metalloelastase3.4.24.650.564
2xs4ALA_PHE_THRKarilysin3.4.240.564
4i03L88Macrophage metalloelastase3.4.24.650.564
4h7610BMacrophage metalloelastase3.4.24.650.561
1hy7MBSStromelysin-13.4.24.170.560
2xs3ALA_PHE_THR_SERKarilysin3.4.240.560
3hy7097A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.560
3i7g732Collagenase 33.4.240.559
2ow28MRMatrix metalloproteinase-93.4.24.350.557
3b8z294A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.557
1b3dS27Stromelysin-13.4.24.170.555
2wo9023Macrophage metalloelastase3.4.24.650.554
3kej3EJCollagenase 33.4.240.553
1mncPLHNeutrophil collagenase3.4.24.340.552
1zs0EINNeutrophil collagenase3.4.24.340.551
2ovx4MRMatrix metalloproteinase-93.4.24.350.551
4a7b3W4Collagenase 33.4.240.545
1biwS80Stromelysin-13.4.24.170.544
1d5jMM3Stromelysin-13.4.24.170.542
1c8tTR1Stromelysin-13.4.24.170.537
4gr3R45Macrophage metalloelastase3.4.24.650.537
4gr8R4CMacrophage metalloelastase3.4.24.650.534
1atl0QISnake venom metalloproteinase atrolysin-D3.4.24.420.523
1youPFDCollagenase 33.4.240.523
3kry3KRCollagenase 33.4.240.523
2oy2ILE_ALA_GLYNeutrophil collagenase3.4.24.340.520
2woa576Macrophage metalloelastase3.4.24.650.520
1fm1WAYCollagenase 33.4.240.518
3aig0ZCSnake venom metalloproteinase adamalysin-23.4.24.460.517
4h1q0XXMatrix metalloproteinase-93.4.24.350.515
1ztq033Collagenase 33.4.240.512
2jih097A disintegrin and metalloproteinase with thrombospondin motifs 13.4.240.506
1hovI5272 kDa type IV collagenase3.4.24.240.505
3kmc403Disintegrin and metalloproteinase domain-containing protein 173.4.24.860.502
1zxcIH6Disintegrin and metalloproteinase domain-containing protein 173.4.24.860.500
3lgp50XDisintegrin and metalloproteinase domain-containing protein 173.4.24.860.498
2dw0GM6Zinc metalloproteinase-disintegrin-like VAP2B3.4.240.497
3aykCGSInterstitial collagenase3.4.24.70.491
3l0tINNDisintegrin and metalloproteinase domain-containing protein 173.4.24.860.486
4rx6ATPNitrogen regulatory PII-like protein/0.486
3e51N35Genome polyprotein2.7.7.480.483
3hy9098A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.482
2yj5ATPCopper-transporting ATPase/0.481
3cukFADD-amino-acid oxidase1.4.3.30.481
2y6dTQJMatrilysin3.4.24.230.479
3b92440Disintegrin and metalloproteinase domain-containing protein 173.4.24.860.476
1nhkCMPNucleoside diphosphate kinase2.7.4.60.475
3clrFADElectron transfer flavoprotein subunit alpha/0.475
4mk728OGenome polyprotein2.7.7.480.473
4wfr2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.472
1o97FADElectron transfer flavoprotein subunit alpha/0.471
1x1cSAHC-20 methyltransferase/0.471
2p9eNAID-3-phosphoglycerate dehydrogenase1.1.1.950.471
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.471
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.470
2ag5NAD3-hydroxybutyrate dehydrogenase type 2/0.469
3cvkN34Genome polyprotein2.7.7.480.469
2b99RDLRiboflavin synthase2.5.1.90.468
2w13WR2Snake venom metalloproteinase BaP13.4.240.468
1szgFNSCytochrome b2, mitochondrial1.1.2.30.467
1dthBATSnake venom metalloproteinase atrolysin-D3.4.24.420.466
1flsWAYCollagenase 33.4.240.466
1rkpIBMcGMP-specific 3',5'-cyclic phosphodiesterase/0.466
4twnB96Ephrin type-A receptor 32.7.10.10.464
2p9cNAID-3-phosphoglycerate dehydrogenase1.1.1.950.463
1tl7ONMAdenylate cyclase type 2/0.462
1tl7ONMAdenylate cyclase type 5/0.462
2i47KGYDisintegrin and metalloproteinase domain-containing protein 173.4.24.860.462
3ljtLA3A disintegrin and metalloproteinase with thrombospondin motifs 53.4.240.462
4hdqGNPRas-related protein Rap-1b/0.462
1mrqSTRAldo-keto reductase family 1 member C1/0.461
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.461
5ewjQELNMDA glutamate receptor subunit/0.461
5ewjQELGlutamate receptor ionotropic, NMDA 2B/0.461
1mv8GDXGDP-mannose 6-dehydrogenase1.1.1.1320.460
3kmeINNDisintegrin and metalloproteinase domain-containing protein 173.4.24.860.460
4avlTMPPolymerase acidic protein/0.460
4mv1ADPBiotin carboxylase6.3.4.140.460
1m9nAMZBifunctional purine biosynthesis protein PURH2.1.2.30.459
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.459
3cluFADElectron transfer flavoprotein subunit alpha/0.459
3zbzOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.459
3jynNDPQuinone oxidoreductase/0.458
2gouFMNNADH:flavin oxidoreductase Sye1/0.457
4xba5GPAprataxin-like protein30.457
1pq944BOxysterols receptor LXR-beta/0.456
1ra3NAPDihydrofolate reductase1.5.1.30.456
2daaDCSD-alanine aminotransferase2.6.1.210.456
2i47INNDisintegrin and metalloproteinase domain-containing protein 173.4.24.860.456
3uph0C1Genome polyprotein2.7.7.480.456
4c3yANB3-ketosteroid dehydrogenase/0.456
4ih71ERGenome polyprotein2.7.7.480.456
4j0v1H7Beta-secretase 13.4.23.460.456
4zzi1NSNAD-dependent protein deacetylase sirtuin-13.5.10.456
1q3aNGHStromelysin-23.4.24.220.455
2vorACPFolylpolyglutamate synthase/0.455
3cehAVEGlycogen phosphorylase, liver form2.4.1.10.455
4jkv1KSSmoothened homolog/0.455
2o6hINI6,7-dimethyl-8-ribityllumazine synthase 12.5.1.780.454
3e6yCW114-3-3-like protein C/0.454
4bfwZVWPantothenate kinase2.7.1.330.454
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.453
4aykCGSInterstitial collagenase3.4.24.70.453
4nu0AP5Adenylate kinase/0.453
2an9GDPGuanylate kinase2.7.4.80.452
2j83BATUlilysin3.4.240.452
3e8r615Disintegrin and metalloproteinase domain-containing protein 173.4.24.860.452
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
3ua808WGlutamate receptor 2/0.452
5c6cCMPcGMP-dependent protein kinase 22.7.11.120.452
1pr6XYAPurine nucleoside phosphorylase DeoD-type/0.451
1qzzSAMAclacinomycin 10-hydroxylase RdmB4.1.10.451
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.451
1tllFADNitric oxide synthase, brain1.14.13.390.451
1x1dSAHC-20 methyltransferase/0.451
2a0yDIHPurine nucleoside phosphorylase2.4.2.10.451
2rbeZMGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.451
3bjcWANcGMP-specific 3',5'-cyclic phosphodiesterase/0.451
4zseANPEpidermal growth factor receptor2.7.10.10.451
5irnADPNucleotide binding oligomerization domain containing 2/0.451
1qcjAPTAntiviral protein I3.2.2.220.450
2ouyCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
2qbuSAHPrecorrin-2 methyltransferase/0.450
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
2pbzATPUncharacterized protein/0.449
3c8bARG_ARG_GLY_ILE_NH2Botulinum neurotoxin type A3.4.24.690.449
3gb4D3MDdmC/0.449
4du6GTPGTP cyclohydrolase 1/0.449
4egbNADdTDP-glucose 4,6-dehydratase/0.449
5bt9NAP3-oxoacyl-(Acyl-carrier-protein) reductase/0.449
3golXNDGenome polyprotein2.7.7.480.448
3qj0QI3Botulinum neurotoxin type A3.4.24.690.448
4k38SAMAnaerobic sulfatase-maturating enzyme1.8.980.448
4uohADPNucleoside diphosphate kinase/0.448
5hwqCAAHydroxymethylglutaryl-CoA synthase/0.448
2zs8ADPPantothenate kinase2.7.1.330.447
3dd125DGlycogen phosphorylase, liver form2.4.1.10.447
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.447
3le9727Disintegrin and metalloproteinase domain-containing protein 173.4.24.860.447
3wqmB29Diterpene synthase3.1.7.80.447
1fcbFMNCytochrome b2, mitochondrial1.1.2.30.446
1ve3SAMUncharacterized protein/0.446
2flhZEACytokinin-specific binding protein/0.446
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.446
2yq92AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.446
3gbuATPUncharacterized sugar kinase PH14592.7.10.446
3kr6UD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.446
1jnzFADAdenylylsulfate reductase, subunit A (AprA)/0.445
1nzdUPGDNA beta-glucosyltransferase/0.445
2pakTYDTDP-4-oxo-6-deoxy-alpha-D-glucose-3,4-oxoisomerase5.3.2.30.445
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
3t8dUBVThermolysin3.4.24.270.445
3t8hUBSThermolysin3.4.24.270.445
4ia05BBcGMP-specific 3',5'-cyclic phosphodiesterase/0.445
5iqeGNPBifunctional AAC/APH2.3.10.445
1mp0NADAlcohol dehydrogenase class-31.1.1.10.444
1w19T5P6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
2d81RB3Poly(3-hydroxybutyrate) depolymerase/0.444
2g8yNADHydroxycarboxylate dehydrogenase B/0.444
3e23SAMUncharacterized protein/0.444
3qiyQI1Botulinum neurotoxin type A3.4.24.690.444
4eqrCOACoenzyme A disulfide reductase/0.444
4ipw1G7Mycocyclosin synthase1.14.21.90.444
4pl0ANPMicrocin-J25 export ATP-binding/permease protein McjD/0.444
1t3zCAOFormyl-CoA:oxalate CoA-transferase/0.443
2b03TUDPhospholipase A2, major isoenzyme3.1.1.40.443
2p9gNAID-3-phosphoglycerate dehydrogenase1.1.1.950.443
3r5yF42Uncharacterized protein/0.443
4wdfA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.443
1psdNADD-3-phosphoglycerate dehydrogenase1.1.1.950.442
2yphQQY2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.442
3eheNADUDP-glucose 4-epimerase (GalE-1)/0.442
3n87N873-dehydroquinate dehydratase4.2.1.100.442
3v3nMIYTetX family tetracycline inactivation enzyme/0.442
4b4vL34Bifunctional protein FolD/0.442
4iz02BIGenome polyprotein2.7.7.480.442
4mv8ACPBiotin carboxylase6.3.4.140.442
4oztP1AEcdysone receptor, putative/0.442
5hbrCOAAcyl-CoA synthetase (NDP forming)/0.442
1e1cDCAMethylmalonyl-CoA mutase large subunit5.4.99.20.441
1hb1OCVIsopenicillin N synthase1.21.3.10.441
1pqc444Oxysterols receptor LXR-beta/0.441
1pr4MTPPurine nucleoside phosphorylase DeoD-type/0.441
2cwfNDPDelta(1)-pyrroline-2-carboxylate/Delta(1)-piperideine-2-carboxylate reductase/0.441
3cdeN3HGenome polyprotein2.7.7.480.441
3dv5BAVBeta-secretase 13.4.23.460.441
3iobA4DPantothenate synthetase6.3.2.10.441
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
3pzcCOAAmino acid--[acyl-carrier-protein] ligase 16.2.1.n20.441
4b63NAPL-ornithine N(5)-monooxygenase/0.441
4bfuZVUPantothenate kinase2.7.1.330.441
4eaw0NQGenome polyprotein2.7.7.480.441
4exg916Beta-secretase 13.4.23.460.441
5hwoHMGHydroxymethylglutaryl-CoA synthase/0.441
1jtuLYBThymidylate synthase/0.440
1me6IVSPlasmepsin-23.4.23.390.440
1q0zAKAAclacinomycin methylesterase RdmC3.1.1.950.440
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.440
2cbsR13Cellular retinoic acid-binding protein 2/0.440
2gr0FADFerredoxin reductase/0.440
2xb9XNW3-dehydroquinate dehydratase4.2.1.100.440
2yg3FADPutrescine oxidase/0.440
2ym2NAPPhenylacetone monooxygenase1.14.13.920.440
3h5sH5SGenome polyprotein2.7.7.480.440
3mj4URMUDP-galactopyranose mutase/0.440
3wczNAPAldo-keto reductase AKR2E4/0.440
4d89BXDBeta-secretase 13.4.23.460.440
4k8s1QTBeta-secretase 13.4.23.460.440
4wbdADPPutative cysteine ligase BshC/0.440
5a2yUTPMitochondrial poly(A) polymerase/0.440