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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
2o5dVR1Genome polyprotein2.7.7.48

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2o5dVR1Genome polyprotein2.7.7.481.000
2d3uCCTPolyprotein/0.596
4ju11NZGenome polyprotein2.7.7.480.534
4jty1NVGenome polyprotein2.7.7.480.524
4ju21O0Genome polyprotein2.7.7.480.499
2ydfIO3Serum albumin/0.497
3bazNAPHydroxyphenylpyruvate reductase1.1.1.2370.495
5iqhGNPBifunctional AAC/APH2.3.10.486
2dbzNAPGlyoxylate reductase1.1.1.260.485
3fql79ZGenome polyprotein2.7.7.480.483
1a8pFADFerredoxin--NADP reductase/0.482
3fqk79ZGenome polyprotein2.7.7.480.482
3cj3SX4Genome polyprotein2.7.7.480.477
3dd125DGlycogen phosphorylase, liver form2.4.1.10.477
3ix9MTXDihydrofolate reductase1.5.1.30.476
4fl3ANPTyrosine-protein kinase SYK2.7.10.20.476
4jvq1MLGenome polyprotein2.7.7.480.476
1ppjANYCytochrome b/0.475
4b4dFADFerredoxin-NADP reductase/0.474
4aseAV9Vascular endothelial growth factor receptor 22.7.10.10.473
1ot7IU5Bile acid receptor/0.472
2vcxD26Hematopoietic prostaglandin D synthase/0.472
2hekGDPUncharacterized protein/0.471
2bx8AZQSerum albumin/0.470
2gjnFMNNitronate monooxygenase1.13.12.160.468
4iacACPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.468
1cq7PY5Aspartate aminotransferase2.6.1.10.467
2hpsCTZCa2+-triggered coelenterazine-binding protein 1/0.467
3sjzGNPTranslation initiation factor 2 subunit gamma/0.467
1efpFADElectron transfer flavoprotein subunit alpha/0.466
3orpAGSSerine/threonine protein kinase/0.466
3sp9IL2Peroxisome proliferator-activated receptor delta/0.466
5j23A2RPutative 2-hydroxyacid dehydrogenase/0.466
1t9c1SMAcetolactate synthase catalytic subunit, mitochondrial2.2.1.60.465
2qdxFADFerredoxin--NADP+ reductase/0.465
2g78REACellular retinoic acid-binding protein 2/0.464
1x2hLPALipoate-protein ligase A6.3.1.200.463
2wo7ASVIsopenicillin N synthase1.21.3.10.463
3pghFLPProstaglandin G/H synthase 21.14.99.10.463
4uj3GNPRas-related protein Rab-11A/0.463
2imkGTXAGAP009194-PA/0.461
2vnkFADNADPH:ferredoxin reductase/0.461
3q7dNPXProstaglandin G/H synthase 21.14.99.10.461
3v2uATPProtein GAL3/0.461
1osvCHCBile acid receptor/0.460
2bueCOAAAC(6')-Ib/0.460
3nf7CIWGag-Pol polyprotein/0.460
2puiADPMethylthioribose kinase2.7.1.1000.459
2w98P1ZProstaglandin reductase 21.3.1.480.459
3zu2NAIEnoyl-[acyl-carrier-protein] reductase [NADH]/0.459
4imuH4BNitric oxide synthase, brain1.14.13.390.459
4kotCE3Uncharacterized protein/0.459
5c46GSPRas-related protein Rab-11A/0.459
1nhv154Genome polyprotein2.7.7.480.458
2zfaFMNLactate oxidase/0.458
3crzFADFerredoxin--NADP+ reductase/0.458
1cozCTPGlycerol-3-phosphate cytidylyltransferase2.7.7.390.457
4fl2ANPTyrosine-protein kinase SYK2.7.10.20.457
1ot7CHCBile acid receptor/0.456
2aq8NAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.456
3m0oFADMonomeric sarcosine oxidase1.5.3.10.456
4dhyS41Glucokinase2.7.1.20.456
4jtw1NUGenome polyprotein2.7.7.480.456
1n5qTNCActVA 6 protein/0.455
1uogP1CDeacetoxycephalosporin C synthase1.14.20.10.455
2mjpANPdITP/XTP pyrophosphatase3.6.1.190.455
4eevL1XHepatocyte growth factor receptor2.7.10.10.455
4xybNDPFormate dehydrogenase/0.455
1l5r700Glycogen phosphorylase, liver form2.4.1.10.454
3mn9ATPActin-5C/0.454
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.454
2bxaC1FSerum albumin/0.453
2vbdV10Isopenicillin N synthase1.21.3.10.453
4fm5DF0Prostaglandin G/H synthase 21.14.99.10.453
4jhz1KVBeta-glucuronidase3.2.1.310.453
4rpgFADUDP-galactopyranose mutase5.4.99.90.453
4twnB96Ephrin type-A receptor 32.7.10.10.453
2eerNADNAD-dependent alcohol dehydrogenase1.1.1.10.452
2p4iMR9Angiopoietin-1 receptor2.7.10.10.452
3d5fL41Peroxisome proliferator-activated receptor delta/0.452
3h3r14HCollagen type IV alpha-3-binding protein/0.452
3lu6IMXSerum albumin/0.452
3oct1N1Tyrosine-protein kinase BTK2.7.10.20.452
4mlp2CXCryptochrome-2/0.452
4nkeIPEFarnesyl pyrophosphate synthase2.5.1.100.452
2cbsR13Cellular retinoic acid-binding protein 2/0.451
4dtiNAIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.451
4wctFADFructosyl amine:oxygen oxidoreductase/0.451
4z35ON9Lysophosphatidic acid receptor 1/0.451
1i5bANPChemotaxis protein CheA2.7.13.30.450
1lwlDSOCamphor 5-monooxygenase1.14.15.10.450
1wwkNAD307aa long hypothetical phosphoglycerate dehydrogenase/0.450
2j9gADPBiotin carboxylase6.3.4.140.450
2xlsFADPutative flavin-containing monooxygenase/0.450
2zoq5IDMitogen-activated protein kinase 32.7.11.240.450
4bvaT3Ketimine reductase mu-crystallin1.5.1.250.450
4e5nNADPhosphonate dehydrogenase1.20.1.10.450
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.450
1hb1OCVIsopenicillin N synthase1.21.3.10.449
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.449
1l3iSAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating)/0.449
2iodMYCDihydroflavonol 4-reductase1.1.1.2190.449
2vczVC3Hematopoietic prostaglandin D synthase/0.449
3e8xNAPBH1520 protein/0.449
3h3sH15Collagen type IV alpha-3-binding protein/0.449
3kxoKXOHematopoietic prostaglandin D synthase/0.449
3nosH4BNitric oxide synthase, endothelial1.14.13.390.449
4e37NDPCatalase1.11.1.60.449
1pg3PRXAcetyl-coenzyme A synthetase/0.448
1rdtL79Retinoic acid receptor RXR-alpha/0.448
1y4lSVRBasic phospholipase A2 homolog 2/0.448
2bxiAZQSerum albumin/0.448
2vjmCOAFormyl-CoA:oxalate CoA-transferase/0.448
3c3xNAPEugenol synthase 11.1.1.3180.448
3pqbVGPPutative oxidoreductase/0.448
4bn1ADPAurora kinase A2.7.11.10.448
1oc1ASVIsopenicillin N synthase1.21.3.10.447
2bgjFADNADPH:ferredoxin reductase/0.447
2bxgIBPSerum albumin/0.447
3w8wFADPutative FAD-dependent oxygenase EncM/0.447
4bcrWY1Peroxisome proliferator-activated receptor alpha/0.447
4cbxATPActin-2/0.447
5aqzSGVHeat shock 70 kDa protein 1A/0.447
1errRALEstrogen receptor/0.446
1qjfACSIsopenicillin N synthase1.21.3.10.446
1t9a1TBAcetolactate synthase catalytic subunit, mitochondrial2.2.1.60.446
2fe4GDPRas-related protein Rab-6B/0.446
3jziJZLBiotin carboxylase6.3.4.140.446
3zonIK1Non-receptor tyrosine-protein kinase TYK22.7.10.20.446
4boeCLRJapanin/0.446
6ctsCICCitrate synthase, mitochondrial2.3.3.10.446
1jx0DFVChalcone--flavonone isomerase 15.5.1.60.445
2a1uFADElectron transfer flavoprotein subunit alpha, mitochondrial/0.445
2igyA2TPlasmepsin 2/0.445
2r26CMCCitrate synthase2.3.3.160.445
3falREARetinoic acid receptor RXR-alpha/0.445
3tx1FADUDP-N-acetylenolpyruvoylglucosamine reductase/0.445
4bfvZVVPantothenate kinase2.7.1.330.445
4eiqKCTPutative FAD-monooxygenase/0.445
4gmgNAPYersiniabactin biosynthetic protein YbtU/0.445
4prxADPDNA gyrase subunit B/0.445
1ie8KH1Vitamin D3 receptor/0.444
1zg32HIIsoflavone 4'-O-methyltransferase/0.444
2p1v5TNRetinoic acid receptor RXR-alpha/0.444
3p9tTCLRepressor/0.444
4gyy12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.444
4n3cUD1UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.444
4n4v2GYTankyrase-12.4.2.300.444
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.444
1hk3T44Serum albumin/0.443
1xq6NAPUncharacterized protein At5g02240/0.443
2uxoTACHTH-type transcriptional regulator TtgR/0.443
3tylH4BNitric oxide synthase, brain1.14.13.390.443
4c1fX8ZMetallo-beta-lactamase type 2/0.443
4i7fNVEGag-Pol polyprotein2.7.7.490.443
4pl4ADPSerine/threonine-protein kinase/endoribonuclease IRE12.7.11.10.443
4xey1N1Tyrosine-protein kinase ABL12.7.10.20.443
4xr9TMPCalS8/0.443
1cbqRE9Cellular retinoic acid-binding protein 2/0.442
1jpaANPEphrin type-B receptor 22.7.10.10.442
1rkxNADCDP-D-glucose-4,6-dehydratase/0.442
2ban357Gag-Pol polyprotein2.7.7.490.442
2bm9SAMCephalosporin hydroxylase CmcI/0.442
3lffZ83Mitogen-activated protein kinase 14/0.442
3o7lANPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.442
3pheC9ARNA-directed RNA polymerase/0.442
3wbfNAPMeso-diaminopimelate D-dehydrogenase/0.442
4o8fBRLPeroxisome proliferator-activated receptor gamma/0.442
4uyg73BBromodomain-containing protein 2/0.442
5eccNAPDehydrofolate reductase type I/0.442
1juvNDPDihydrofolate reductase1.5.1.30.441
2bw7ECSAdenylate cyclase/0.441
2pmdGNPTranslation initiation factor 2 subunit gamma/0.441
3m31FADEndoplasmic oxidoreductin-11.8.40.441
3oewNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.441
3x2vATPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.441
4bfpSWYTankyrase-22.4.2.300.441
4ead0NPThymidine phosphorylase2.4.2.40.441
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
2tctCTCTetracycline repressor protein class D/0.440
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.440
3adaNADSubunit alpha of sarocosine oxidase/0.440
3kmwATPIntegrin-linked protein kinase2.7.11.10.440
4ag7COAGlucosamine 6-phosphate N-acetyltransferase/0.440