Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
1brpRTLRetinol-binding protein 4

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1brpRTLRetinol-binding protein 4/1.000
1iiuRTLRetinol-binding protein 4/0.649
1kt7RTLRetinol-binding protein 4/0.635
1aqbRTLRetinol-binding protein 4/0.630
1felFENRetinol-binding protein 4/0.628
1kt3RTLRetinol-binding protein 4/0.625
1kt4RTLRetinol-binding protein 4/0.616
1kt6RTLRetinol-binding protein 4/0.614
3fmz2T1Retinol-binding protein 4/0.548
4j6cSTRCytochrome P450 monooxygenase/0.495
4cax646Glycylpeptide N-tetradecanoyltransferase2.3.1.970.488
3qm4PN0Cytochrome P450 2D6/0.482
2jn3JN3Fatty acid-binding protein, liver/0.479
1ot7CHCBile acid receptor/0.478
4mfb29TGag-Pol polyprotein2.7.7.490.478
1osvCHCBile acid receptor/0.477
2wonZZEGag-Pol polyprotein2.7.7.490.476
5jtbZMAAdenosine receptor A2a/0.476
1d3hA26Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.474
3wavDWVEctonucleotide pyrophosphatase/phosphodiesterase family member 23.1.4.390.472
2q9fC3SCholesterol 24-hydroxylase/0.471
4h4o506Gag-Pol polyprotein2.7.7.490.471
2iltNN1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.470
3iptEQUSteroid Delta-isomerase5.3.3.10.470
3angDCCTranscriptional repressor, TetR family/0.469
4ez8DHFThymidylate synthase2.1.1.450.469
2wsa646Glycylpeptide N-tetradecanoyltransferase/0.468
3eq6BCOAcyl-coenzyme A synthetase ACSM2A, mitochondrial6.2.1.20.468
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.468
1p91SAM23S rRNA (guanine(745)-N(1))-methyltransferase/0.467
2y5dNAP3,4-dehydroadipyl-CoA semialdehyde dehydrogenase/0.467
4c77N01Phenylacetone monooxygenase1.14.13.920.467
5fm7ADPRuvB-like helicase/0.467
2fonFADAcyl-coenzyme A oxidase/0.466
3mg3ECHOrange carotenoid-binding protein/0.466
1thnADPAnti-sigma F factor/0.465
2z78H86Geranylgeranyl pyrophosphate synthase/0.465
3p6nDSOCamphor 5-monooxygenase1.14.15.10.465
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.465
5k2dZMAAdenosine receptor A2a/0.464
3d3eD3ECorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.463
4j6bPLOCytochrome P450 monooxygenase/0.463
1rx0FADIsobutyryl-CoA dehydrogenase, mitochondrial1.3.990.462
3fcoIIGCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.462
4hyf1AKTankyrase-22.4.2.300.462
1dv2ATPBiotin carboxylase6.3.4.140.461
2bktRPFRenin3.4.23.150.461
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.461
3vt65YIVitamin D3 receptor/0.461
4jbtASDCytochrome P450 monooxygenase/0.461
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.461
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.461
4dbs0HVAldo-keto reductase family 1 member C3/0.460
5dc5B3NHistone deacetylase 83.5.1.980.460
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.459
3gytDL4Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.459
3tdaPN0Cytochrome P450 2D6/0.458
5k2aZMAAdenosine receptor A2a/0.458
2b00GCHPhospholipase A2, major isoenzyme3.1.1.40.457
3is9AC7Gag-Pol polyprotein2.7.7.490.457
3a1l2CCCytochrome P450/0.456
3oq13OQCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.456
4hfr14MCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.456
5k2bZMAAdenosine receptor A2a/0.456
1xdkREARetinoic acid receptor beta/0.455
3mlaJJZProbable nicotinate-nucleotide adenylyltransferase/0.455
4ejn0R4RAC-alpha serine/threonine-protein kinase2.7.11.10.455
4iaq2GM5-hydroxytryptamine receptor 1B/0.455
5iua6DXAdenosine receptor A2a/0.455
1kt5RTLRetinol-binding protein 4/0.454
1xddAAYIntegrin alpha-L/0.454
3gkjHC3Niemann-Pick C1 protein/0.454
3gyuDL7Nuclear hormone receptor of the steroid/thyroid hormone receptors superfamily/0.454
3w5p4OAVitamin D3 receptor/0.454
2w4qCBWProstaglandin reductase 21.3.1.480.453
2y05NAPProstaglandin reductase 1/0.453
2ykbYKBHeat shock protein HSP 90-alpha/0.453
3ar4TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.453
3ar5TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.453
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.453
4b5pACOAlpha-tubulin N-acetyltransferase 1/0.453
3emlZMAAdenosine receptor A2a/0.453
3gmd2M3Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3h6k33TCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3nwlNDPCatalase1.11.1.60.452
4dvi2IWTankyrase-12.4.2.300.452
4g3jVNTLanosterol 14-alpha-demethylase/0.452
4ia2BIVVitamin D3 receptor A/0.452
5bvw1N1Epithelial discoidin domain-containing receptor 12.7.10.10.452
5k2cZMAAdenosine receptor A2a/0.452
1t9gFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.451
2e98B29Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.451
3lalKRVGag-Pol polyprotein2.7.7.490.451
3w0hW12Vitamin D3 receptor/0.451
4bj9UHBTankyrase-22.4.2.300.451
4lb2DM5Serum albumin/0.451
1m52P17Tyrosine-protein kinase ABL12.7.10.20.450
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.450
1ysx4EBSerum albumin/0.450
2qjySMACytochrome b/0.450
3ch6311Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.450
3qppPFWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
4i9i1DYTankyrase-12.4.2.300.450
4xbfFADLysine-specific histone demethylase 1A10.450
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.449
1lriCLRBeta-elicitin cryptogein/0.449
1n83CLRNuclear receptor ROR-alpha/0.449
2azyCHDPhospholipase A2, major isoenzyme3.1.1.40.449
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.449
3hywDCQSulfide-quinone reductase/0.449
3nalDBKCalcium-transporting ATPase/0.449
3vt7VDXVitamin D3 receptor/0.449
1fcx184Retinoic acid receptor gamma/0.448
2azzTCHPhospholipase A2, major isoenzyme3.1.1.40.448
2hkoFADLysine-specific histone demethylase 1A10.448
2yltNAPPhenylacetone monooxygenase1.14.13.920.448
3gw9VNILanosterol 14-alpha-demethylase/0.448
3otqMZLBifunctional epoxide hydrolase 23.3.2.100.448
3p6mDSOCamphor 5-monooxygenase1.14.15.10.448
4bb3KKAIsopenicillin N synthase1.21.3.10.448
4dggI76Proto-oncogene tyrosine-protein kinase Src2.7.10.20.448
4g7gVFVLanosterol 14-alpha-demethylase/0.448
4jvf17XRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.448
4k4eK4ETankyrase-12.4.2.300.448
1dgbNDPCatalase1.11.1.60.447
2b01TUDPhospholipase A2, major isoenzyme3.1.1.40.447
3ox4NADAlcohol dehydrogenase 21.1.1.10.447
4eiyZMAAdenosine receptor A2a/0.447
5iu4ZMAAdenosine receptor A2a/0.447
4ug2NGIAdenosine receptor A2a/0.447
1zq5E04Aldo-keto reductase family 1 member C3/0.446
3h1jSMACytochrome b/0.446
4i3vNADAldehyde dehydrogenase (NAD+)/0.446
4muw2F4cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4myq19TcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.446
4wa9AXITyrosine-protein kinase ABL12.7.10.20.446
1skgVAL_ALA_PHE_ARG_SERBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.445
1tw4CHDFatty acid-binding protein, liver/0.445
2dw4FADLysine-specific histone demethylase 1A10.445
2nsd4PIEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.445
2prh238Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.445
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.445
3t195MAGag-Pol polyprotein2.7.7.490.445
4d04FADPhenylacetone monooxygenase1.14.13.920.445
4j6dTESCytochrome P450 monooxygenase/0.445
4la0198Serum albumin/0.445
4o7uTHFThymidylate synthase/0.445
4pd6URINucleoside permease/0.445
1dggNDPCatalase1.11.1.60.444
1lquFADNADPH-ferredoxin reductase FprA1.18.1.20.444
2b0m201Dihydroorotate dehydrogenase (quinone), mitochondrial1.3.5.20.444
2dubCO8Enoyl-CoA hydratase, mitochondrial4.2.1.170.444
2zynBCDPeriplasmic binding protein/0.444
3ar7TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.444
3deiRXBCaspase-33.4.22.560.444
3dleGFAGag-Pol polyprotein2.7.7.490.444
3p6pA6BCamphor 5-monooxygenase1.14.15.10.444
4mvh2F5cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
4nieNBHNuclear receptor ROR-gamma/0.444
1hvyD16Thymidylate synthase2.1.1.450.443
1pqc444Oxysterols receptor LXR-beta/0.443
1xu9CPSCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.443
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.443
3zbrNAP2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.443
4a322CDGlycylpeptide N-tetradecanoyltransferase/0.443
4gdpFADPolyamine oxidase FMS1/0.443
4gevCB3Thymidylate synthase/0.443
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.443
1cbrREACellular retinoic acid-binding protein 1/0.442
1fd0254Retinoic acid receptor gamma/0.442
1kzuRG1Light-harvesting protein B-800/850 alpha chain/0.442
1kzuRG1Light-harvesting protein B-800/850 beta chain/0.442
1pz1NAPGeneral stress protein 69/0.442
1rf9DBRCamphor 5-monooxygenase1.14.15.10.442
2ftoCB3Thymidylate synthase/0.442
2ntjP1HEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
3g5qFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.442
3gkiCLRNiemann-Pick C1 protein/0.442
3nxuRITCytochrome P450 3A4/0.442
4bb5HD2Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
4bb6HD1Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
1fmjRTLRetinol dehydratase/0.441
1kb9SMACytochrome b/0.441
1ndzFR5Adenosine deaminase3.5.4.40.441
2aibERGBeta-elicitin cinnamomin/0.441
3irxUDRGag-Pol polyprotein2.7.7.490.441
3lu8IQXSerum albumin/0.441
3up3XCAaceDAF-12/0.441
1iyzNDPProbable quinone oxidoreductase/0.440
1jraFADFAD-linked sulfhydryl oxidase ERV21.8.3.20.440
1yc2NADNAD-dependent protein deacylase 2/0.440
2hw2RFPRifampin ADP-ribosyl transferase/0.440
3c6tM14Gag-Pol polyprotein2.7.7.490.440
3cylVITBasic phospholipase A2 homolog piratoxin-2/0.440
3ipq965Oxysterols receptor LXR-alpha/0.440
3ix9MTXDihydrofolate reductase1.5.1.30.440
4eevL1XHepatocyte growth factor receptor2.7.10.10.440
4g20484Vitamin D3 receptor A/0.440