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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
1sqbAZOCytochrome b

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1sqbAZOCytochrome b/1.000
3l71AZOCytochrome b/0.608
3tguWF3Cytochrome b/0.607
3l70JZVCytochrome b/0.597
1sqpMYXCytochrome b/0.557
1sqqOSTCytochrome b/0.522
4jlj1NMDeoxycytidine kinase2.7.1.740.507
5d7q4I5NAD-dependent protein deacetylase sirtuin-23.5.10.487
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.486
4j6cSTRCytochrome P450 monooxygenase/0.483
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.478
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.474
1pkfEPDEpothilone C/D epoxidase1.140.473
3cr7PPSAdenylyl-sulfate kinase2.7.1.250.473
4j6bPLOCytochrome P450 monooxygenase/0.473
4jbtASDCytochrome P450 monooxygenase/0.473
1q5dEPBEpothilone C/D epoxidase1.140.470
2ntjP1HEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.469
3a1l2CCCytochrome P450/0.466
4r20AERCytochrome P450 family 17 polypeptide 2/0.466
1s3uTQDDihydrofolate reductase1.5.1.30.464
4j6dTESCytochrome P450 monooxygenase/0.464
1zidZIDEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.463
2y98MIVMycinamicin IV hydroxylase/epoxidase/0.463
3pm0BHFCytochrome P450 1B1/0.463
1rf9DBRCamphor 5-monooxygenase1.14.15.10.460
1tbbROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.460
3is9AC7Gag-Pol polyprotein2.7.7.490.460
4g1z0VPVitamin D3 receptor A/0.459
1ddtAPUDiphtheria toxin/0.458
1ohkCOPDihydrofolate reductase1.5.1.30.458
4cjx9L9C-1-tetrahydrofolate synthase, cytoplasmic, putative/0.458
1w06W05Isopenicillin N synthase1.21.3.10.457
2h42VIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.457
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.457
3tdaPN0Cytochrome P450 2D6/0.457
5bp9SAHPutative methyltransferase protein/0.456
2jc6QPPCalcium/calmodulin-dependent protein kinase type 1D2.7.11.170.455
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.455
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.455
1fcx184Retinoic acid receptor gamma/0.454
4boeCLRJapanin/0.454
2gpvOHTEstrogen-related receptor gamma/0.453
3irxUDRGag-Pol polyprotein2.7.7.490.453
3qm4PN0Cytochrome P450 2D6/0.453
3u8hBHPPhospholipase A2, membrane associated/0.453
1bk0ACVIsopenicillin N synthase1.21.3.10.452
2fm0M98cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.452
3l6jZ90Alr2278 protein/0.452
3vtbTKAVitamin D3 receptor/0.452
4dhyS41Glucokinase2.7.1.20.452
4iaq2GM5-hydroxytryptamine receptor 1B/0.452
1e1nFADNADPH:adrenodoxin oxidoreductase, mitochondrial1.18.1.60.451
3hywDCQSulfide-quinone reductase/0.451
4o761M3Bromodomain-containing protein 4/0.451
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.450
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.450
4iah1DXAlr2278 protein/0.450
3rfmCFFAdenosine receptor A2a/0.450
1ek2CDUBifunctional epoxide hydrolase 2/0.449
2hrcCHDFerrochelatase, mitochondrial4.99.1.10.449
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.449
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.448
1ygjRMCPyridoxal kinase2.7.1.350.448
1ezvSMACytochrome b/0.447
2w0bCMWLanosterol 14-alpha demethylase1.14.13.700.447
3ctj320Hepatocyte growth factor receptor2.7.10.10.447
3vjcZGASqualene synthase2.5.1.210.447
3w5eNVWcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.447
4iarERM5-hydroxytryptamine receptor 1B/0.447
4nc3ERM5-hydroxytryptamine receptor 2B/0.447
1kzjCB3Thymidylate synthase/0.446
3v94WYQPhosphodiesterase/0.446
5ab6CAANonspecific lipid-transfer protein, putative/0.446
1fp1HCCIsoliquiritigenin 2'-O-methyltransferase/0.445
1hb3SCVIsopenicillin N synthase1.21.3.10.445
1l2jETCEstrogen receptor beta/0.445
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.445
3dl9V2HVitamin D 25-hydroxylase/0.445
3wavDWVEctonucleotide pyrophosphatase/phosphodiesterase family member 23.1.4.390.445
1uomPTIEstrogen receptor/0.444
2b01TUDPhospholipase A2, major isoenzyme3.1.1.40.444
2pnuENMAndrogen receptor/0.444
4bb5HD2Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.444
4ib4ERM5-hydroxytryptamine receptor 2B/0.444
1h36R88Squalene--hopene cyclase4.2.1.1290.443
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
3nx4NAPPutative oxidoreductase/0.443
4dvq1CACytochrome P450 11B2, mitochondrial1.14.15.40.443
5ab7MLCNonspecific lipid-transfer protein, putative/0.443
1pt8ACOFormyl-CoA:oxalate CoA-transferase/0.442
1yinCM3Estrogen receptor/0.442
3ghwGHWDihydrofolate reductase1.5.1.30.442
3uzaT4GAdenosine receptor A2a/0.442
2y60M8FIsopenicillin N synthase1.21.3.10.441
2yiuSMACytochrome b/0.441
3abaFLICytochrome P450/0.441
3bxxQUEDihydroflavonol 4-reductase1.1.1.2190.441
3h1jSMACytochrome b/0.441
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.441
3t8xT8XT-cell surface glycoprotein CD1b/0.441
1p44GEQEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
2vqoTFGHistone deacetylase 43.5.1.980.440
3e5aVX6Aurora kinase A2.7.11.10.440
3gxoMQAMitomycin biosynthesis 6-O-methyltransferase/0.440
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.440
3p6oETGCamphor 5-monooxygenase1.14.15.10.440
3qlhT27Gag-Pol polyprotein2.7.7.490.440
3vrwYS5Vitamin D3 receptor/0.440
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.440
3zkyWT4Isopenicillin N synthase1.21.3.10.440
3emlZMAAdenosine receptor A2a/0.440