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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
3djlFADPutative acyl-CoA dehydrogenase AidB1.3.99

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3djlFADPutative acyl-CoA dehydrogenase AidB1.3.991.000
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.522
2d29FADAcyl-CoA dehydrogenase/0.519
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.503
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.503
2dvlFADAcyl-CoA dehydrogenase/0.498
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.479
3sf6FDAGlutaryl-CoA dehydrogenase/0.479
3zkyWT4Isopenicillin N synthase1.21.3.10.476
3rsv3RSBeta-secretase 13.4.23.460.475
2z3uCRRCytochrome P450/0.474
2c9zQUEAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.472
2r2mI50Prothrombin3.4.21.50.471
1digL37C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.470
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.467
3v0o4GWHisto-blood group ABO system transferase/0.466
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.465
4x28FDAAcyl-CoA dehydrogenase FadE26/0.464
4x28FDAAcyl-CoA dehydrogenase FadE27/0.464
2jh5895Prothrombin3.4.21.50.463
3a1l2CCCytochrome P450/0.463
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.463
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.463
2vigFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.10.462
2c1zKMPAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.461
1zgv501Prothrombin3.4.21.50.460
4b4w9L9Bifunctional protein FolD/0.460
4ddl0JQcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.460
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.460
1dgbNDPCatalase1.11.1.60.458
3c1kT15Prothrombin3.4.21.50.458
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.458
1ypeUIPProthrombin3.4.21.50.457
1yplRA8Prothrombin3.4.21.50.457
2xviFADPutative flavin-containing monooxygenase/0.457
3q44D50M1 family aminopeptidase3.4.110.457
3q43D66M1 family aminopeptidase3.4.110.456
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.455
1o5rFR9Adenosine deaminase3.5.4.40.455
1bucFADAcyl-CoA dehydrogenase, short-chain specific1.3.8.10.454
1ezfIN0Squalene synthase2.5.1.210.454
2vn1FK5Peptidylprolyl isomerase/0.454
1qorNDPQuinone oxidoreductase 1/0.453
1y60H4M5,6,7,8-tetrahydromethanopterin hydro-lyase4.2.1.1470.453
2q153MRBeta-secretase 13.4.23.460.453
4bfxZVXPantothenate kinase2.7.1.330.453
5g53NECAdenosine receptor A2a/0.453
2y60M8FIsopenicillin N synthase1.21.3.10.451
1s7gNADNAD-dependent protein deacylase 2/0.450
4y6gF6FTryptophan synthase alpha chain/0.450
1d6w00RProthrombin3.4.21.50.449
1rpwDIDHTH-type transcriptional regulator QacR/0.449
3d3p20AcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.449
4ryvZEAProtein LlR18A/0.449
1o6qR17Squalene--hopene cyclase4.2.1.1290.448
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.448
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.448
1fdtESTEstradiol 17-beta-dehydrogenase 11.1.1.620.447
1qxlFR8Adenosine deaminase3.5.4.40.447
2e99B08Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.447
2wo7ASVIsopenicillin N synthase1.21.3.10.447
4qzuRTLRetinol-binding protein 2/0.447
1c4uIH1Prothrombin3.4.21.50.446
1obnASVIsopenicillin N synthase1.21.3.10.446
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.446
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.446
4k88HFGBifunctional glutamate/proline--tRNA ligase6.1.1.150.446
5dp2NAPCurF/0.446
8catNDPCatalase1.11.1.60.446
3w0tHPULactoylglutathione lyase4.4.1.50.445
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.445
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.444
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.444
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.443
2eixFADNADH-cytochrome b5 reductase/0.443
2gvcFADThiol-specific monooxygenase1.14.130.443
2xveFADPutative flavin-containing monooxygenase/0.443
3hbfMYCFlavonoid 3-O-glucosyltransferase2.4.10.443
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.443
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4j6bPLOCytochrome P450 monooxygenase/0.443
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.442
2jh6894Prothrombin3.4.21.50.442
2o8h227cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
2y6fM9FIsopenicillin N synthase1.21.3.10.442
4b4vL34Bifunctional protein FolD/0.442
4f1l0RYPoly [ADP-ribose] polymerase 142.4.2.300.442
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
4j6cSTRCytochrome P450 monooxygenase/0.442
1s7lCOAAcetyl transferase/0.441
1uydPU8Heat shock protein HSP 90-alpha/0.441
2clfF6FTryptophan synthase alpha chain/0.441
2lfoGCHFatty acid-binding protein, liver/0.441
2vbpVB1Isopenicillin N synthase1.21.3.10.441
3v0p4GWHisto-blood group ABO system transferase/0.441
7catNDPCatalase1.11.1.60.441
3sn6P0GBeta-2 adrenergic receptor/0.441
2jbsFMNp-hydroxyphenylacetate 3-hydroxylase, oxygenase component/0.440
2q0gUPUPoly(A) polymerase, putative/0.440
2uxoTACHTH-type transcriptional regulator TtgR/0.440
3btjDEQHTH-type transcriptional regulator QacR/0.440
3nwlNDPCatalase1.11.1.60.440
4e0u0MVCyclic dipeptide N-prenyltransferase/0.440