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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1fx1FMNFlavodoxin

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
1fx1FMNFlavodoxin/1.000
4fx2FMNFlavodoxin/0.682
1j9gFMNFlavodoxin/0.642
1j8qFMNFlavodoxin/0.616
5fx2FMNFlavodoxin/0.595
5tgzFMNCannabinoid receptor 1/0.591
1akwFMNFlavodoxin/0.589
1azlFMNFlavodoxin/0.564
2fx2FMNFlavodoxin/0.561
1bu5RBFFlavodoxin/0.557
1wsbFMNFlavodoxin/0.555
3f6rFMNFlavodoxin/0.552
1xyvFMNFlavodoxin/0.549
3kaqFMNFlavodoxin/0.546
3f90FMNFlavodoxin/0.544
3kapFMNFlavodoxin/0.542
1akrFMNFlavodoxin/0.541
1c7fFMNFlavodoxin/0.537
5xraFMNCannabinoid receptor 1/0.536
1akuFMNFlavodoxin/0.525
3ojxFMNNADPH--cytochrome P450 reductase/0.518
4y7cFMNNADPH--cytochrome P450 reductase/0.509
1ykgFMNSulfite reductase [NADPH] flavoprotein alpha-component/0.499
2fcrFMNFlavodoxin/0.494
1xyyFMNFlavodoxin/0.480
3zc3FADFerredoxin--NADP reductase1.18.1.20.480
1ahnFMNFlavodoxin 1/0.478
2mokFMNFlavodoxin 1/0.476
3adaNADSubunit alpha of sarocosine oxidase/0.474
1fnbFADFerredoxin--NADP reductase, chloroplastic1.18.1.20.473
2bn4FMNNADPH--cytochrome P450 reductase/0.473
5a4vQUEGlutathione S-transferase F22.5.1.180.473
1cznFMNFlavodoxin/0.468
1ofvFMNFlavodoxin/0.468
3hr4FMNNitric oxide synthase, inducible1.14.13.390.466
5dp2NAPCurF/0.464
2v5uFMNFlavodoxin/0.463
3fhxPLPPyridoxal kinase2.7.1.350.462
1bx1FADFerredoxin--NADP reductase, chloroplastic1.18.1.20.460
3b1dPLSBetaC-S lyase/0.460
3esyFMNFlavodoxin/0.460
2aq7TL53-oxoacyl-[acyl-carrier-protein] synthase 12.3.1.410.458
2ejzSAHDiphthine synthase/0.458
3ai0PNWBeta-glucosidase/0.457
3exhTPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.457
3exhTPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.457
1fmlRTLRetinol dehydratase/0.456
4wx2F6FTryptophan synthase alpha chain/0.456
4wx2F6FTryptophan synthase beta chain4.2.1.200.456
1x8lOXRRetinol dehydratase/0.454
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3n3aFMNProtein NrdI/0.454
1tcoFK5Peptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.453
1tcoFK5Serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform3.1.3.160.453
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.452
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.452
4knzCB3Thymidylate synthase/0.452
1ejiTHFSerine hydroxymethyltransferase, cytosolic/0.451
1gjrFADFerredoxin--NADP reductase1.18.1.20.451
1icsFMN12-oxophytodienoate reductase 11.3.1.420.451
1qoqIGPTryptophan synthase alpha chain/0.450
1g63FMNEpidermin decarboxylase4.1.10.449
1jtvTESEstradiol 17-beta-dehydrogenase 11.1.1.620.448
4bfwZVWPantothenate kinase2.7.1.330.448
1j9zFMNNADPH--cytochrome P450 reductase/0.447
2rc6FADFerredoxin--NADP reductase/0.447
3c1kT15Prothrombin3.4.21.50.447
3i8p8403-oxoacyl-[acyl-carrier-protein] synthase 22.3.1.1790.447
3q9bB3NAcetylpolyamine amidohydrolase/0.447
1h36R88Squalene--hopene cyclase4.2.1.1290.446
2a2cADPN-acetylgalactosamine kinase2.7.1.1570.446
2q1tNADPutative nucleotide sugar epimerase/ dehydratase/0.446
2vqbNAPPutative flavin-containing monooxygenase/0.446
3ojwFMNNADPH--cytochrome P450 reductase/0.446
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA23.6.30.446
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA1/0.446
1swtBTNStreptavidin/0.445
2j9fTHV2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial1.2.4.40.445
2j9fTHV2-oxoisovalerate dehydrogenase subunit beta, mitochondrial1.2.4.40.445
2o1sTDP1-deoxy-D-xylulose-5-phosphate synthase2.2.1.70.445
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.445
4jtqNAPAldo-keto reductase family 1 member C2/0.445
4oxxFMNCindoxin/0.445
2owfSAHDiphthine synthase/0.444
2pksG44Prothrombin3.4.21.50.444
3dvaTPWPyruvate dehydrogenase E1 component subunit alpha1.2.4.10.443
3dvaTPWPyruvate dehydrogenase E1 component subunit beta1.2.4.10.443
3jyqNADQuinate/shikimate dehydrogenase (NAD(+))/0.443
3nytULPUDP-2-acetamido-2-deoxy-3-oxo-D-glucuronate aminotransferase2.6.1.980.443
1qh0FADFerredoxin--NADP reductase1.18.1.20.442
2gvdFKPAdenylate cyclase type 2/0.442
2gvdFKPAdenylate cyclase type 5/0.442
3p67FMNPentaerythritol tetranitrate reductase/0.442
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.441
2cntCOARibosomal-protein-alanine acetyltransferase/0.440
2ewmNAD(S)-1-Phenylethanol dehydrogenase1.1.1.3110.440
2xuqTZ4Acetylcholinesterase3.1.1.70.440
3gr8FMNNADPH dehydrogenase/0.440
3p62FMNPentaerythritol tetranitrate reductase/0.440
3w5hFADNADH-cytochrome b5 reductase 31.6.2.20.440
4af6FADFerredoxin--NADP reductase, leaf isozyme, chloroplastic1.18.1.20.440