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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
1q6yCOAFormyl-CoA:oxalate CoA-transferase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1q6yCOAFormyl-CoA:oxalate CoA-transferase/1.000
1pt5ACOFormyl-CoA:oxalate CoA-transferase/0.636
1pt8ACOFormyl-CoA:oxalate CoA-transferase/0.580
1p5rCOAFormyl-CoA:oxalate CoA-transferase/0.516
4bcaFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.485
3lfm3DTAlpha-ketoglutarate-dependent dioxygenase FTO/0.483
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.477
2gnaGDUUDP-N-acetylglucosamine 4,6-dehydratase (inverting)4.2.1.1150.473
3f03FMNPentaerythritol tetranitrate reductase/0.471
2uxoTACHTH-type transcriptional regulator TtgR/0.470
2vbdV10Isopenicillin N synthase1.21.3.10.469
4brdANPEctonucleoside triphosphate diphosphohydrolase I/0.469
3ik6HCZGlutamate receptor 2/0.468
4ead0NPThymidine phosphorylase2.4.2.40.468
1wp4NDP3-hydroxyisobutyrate dehydrogenase/0.467
1vgqCAOFormyl-CoA:oxalate CoA-transferase/0.465
3p62FMNPentaerythritol tetranitrate reductase/0.465
4bfvZVVPantothenate kinase2.7.1.330.465
4bbyFADAlkyldihydroxyacetonephosphate synthase, peroxisomal2.5.1.260.461
4lcjNADC-terminal-binding protein 2/0.461
1rf7DHFDihydrofolate reductase1.5.1.30.460
3v2uATPProtein GAL3/0.460
2jbsFMNp-hydroxyphenylacetate 3-hydroxylase, oxygenase component/0.459
2yvwEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.459
3ieuGDPGTPase Era/0.459
2c59NADGDP-mannose 3,5-epimerase5.1.3.180.458
3gwdNAPCyclohexanone monooxygenase/0.458
1t4cCOAFormyl-CoA:oxalate CoA-transferase/0.457
1bwlFMNNADPH dehydrogenase 11.6.99.10.456
1sd1FMCS-methyl-5'-thioadenosine phosphorylase/0.456
2hfuMEVMevalonate kinase/0.456
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.456
1esvLARActin, alpha skeletal muscle/0.455
1h50FMNPentaerythritol tetranitrate reductase/0.454
3kb1ADPIron-sulfur cluster carrier protein/0.454
3owaFADAcyl-CoA dehydrogenase/0.454
5d3qGDPDynamin-13.6.5.50.454
3c6n2S8Protein TRANSPORT INHIBITOR RESPONSE 1/0.452
3px3T3QdTDP-3-amino-3,6-dideoxy-alpha-D-glucopyranose N,N-dimethyltransferase2.1.1.2350.452
4dbzNDPPutative ketoacyl reductase1.3.10.452
4nbtNAD3-oxoacyl-[acyl-carrier-protein] reductase/0.452
1g1aNADdTDP-glucose 4,6-dehydratase/0.451
3q9bB3NAcetylpolyamine amidohydrolase/0.451
3qeoLLTDeoxycytidine kinase2.7.1.740.451
2i7pACOPantothenate kinase 32.7.1.330.450
3oafOAGDihydrofolate reductase1.5.1.30.450
3p67FMNPentaerythritol tetranitrate reductase/0.450
5dn1AMZPhosphoribosyl isomerase A5.3.1.160.450
1u71MXADihydrofolate reductase1.5.1.30.449
2abjCBCBranched-chain-amino-acid aminotransferase, cytosolic2.6.1.420.449
2y3rTIRTamL/0.449
3d2pCOAAmino-acid acetyltransferase/0.449
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.449
2eklNADD-3-phosphoglycerate dehydrogenase/0.448
3qt62P0Mevalonate diphosphate decarboxylase/0.448
4i1nFOLDihydrofolate reductase1.5.1.30.448
1dr2TAPDihydrofolate reductase1.5.1.30.447
1kzjCB3Thymidylate synthase/0.447
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.447
1vf3GDNGlutathione S-transferase 32.5.1.180.447
1w49APCNTPase P4/0.447
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.447
1ykdCMPAdenylate cyclase/0.447
2ojtUBAGlutamate receptor ionotropic, kainate 1/0.447
4jx1CAHCamphor 5-monooxygenase1.14.15.10.447
4z5wILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.447
5c2tFADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial/0.447
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.446
2rqfJH3Hemolymph juvenile hormone binding protein/0.446
3a0tADPSensor histidine kinase/0.446
3dheANDEstradiol 17-beta-dehydrogenase 11.1.1.620.446
3ijdC2FMethylenetetrahydrofolate reductase/0.446
3qwbNDPProbable quinone oxidoreductase1.6.5.50.446
4a81DXCMajor pollen allergen Bet v 1-A/0.446
4g67SAHUncharacterized ACR, COG1565 superfamily/0.446
4xj43ATCyclic GMP-AMP synthase/0.446
3is2FADVivid PAS protein VVD/0.445
3nmpPYVAbscisic acid receptor PYL2/0.445
4bfzZVZPantothenate kinase2.7.1.330.445
4ej1FOLDihydrofolate reductase1.5.1.30.445
5hs1VORLanosterol 14-alpha demethylase/0.445
1fmlRTLRetinol dehydratase/0.444
1tojHCIAspartate aminotransferase2.6.1.10.444
1yqdNAPSinapyl alcohol dehydrogenase/0.444
4y9lFADAcyl-CoA dehydrogenase family member 11/0.444
1k27MTMS-methyl-5'-thioadenosine phosphorylase/0.443
1nooCAHCamphor 5-monooxygenase1.14.15.10.443
2g8yNADHydroxycarboxylate dehydrogenase B/0.443
2q1uNADPutative nucleotide sugar epimerase/ dehydratase/0.443
2zi63D1Deoxycytidine kinase2.7.1.740.443
3bv2P38Mitogen-activated protein kinase 14/0.443
3drcMTXDihydrofolate reductase1.5.1.30.443
3f3sNADLambda-crystallin homolog/0.443
3h3qH13Collagen type IV alpha-3-binding protein/0.443
4l4eCAMCamphor 5-monooxygenase1.14.15.10.443
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.443
1f20FADNitric oxide synthase, brain1.14.13.390.442
1yreCOAUncharacterized protein/0.442
2cvzNDP3-hydroxyisobutyrate dehydrogenase/0.442
3eksCY9Actin-5C/0.442
3h06VBPGlutamate receptor 2/0.442
3h3t16HCollagen type IV alpha-3-binding protein/0.442
3o4rNAPDehydrogenase/reductase SDR family member 41.1.1.1840.442
3r5zF42Uncharacterized protein/0.442
3vcyUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.442
4wfr2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.442
1ao8MTXDihydrofolate reductase1.5.1.30.441
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.441
1hb3SCVIsopenicillin N synthase1.21.3.10.441
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1u3dFADCryptochrome-1/0.441
2dv3SAHDiphthine synthase/0.441
3isjA8DPantothenate synthetase6.3.2.10.441
3ndcSAHPrecorrin-4 C(11)-methyltransferase2.1.1.1330.441
3tqcADPPantothenate kinase/0.441
5adhAPRAlcohol dehydrogenase E chain1.1.1.10.441
2p5cSAHDiphthine synthase/0.440
3atrFDAConserved Archaeal protein/0.440
3t58FADSulfhydryl oxidase 11.8.3.20.440
3u9eCOALmo1369 protein/0.440
4bfwZVWPantothenate kinase2.7.1.330.440
4nbwNADShort-chain dehydrogenase/reductase SDR/0.440