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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
4wucANPDNA gyrase subunit B

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4wucANPDNA gyrase subunit B/1.000
4wudANPDNA gyrase subunit B/0.846
4prxADPDNA gyrase subunit B/0.650
4prvADPDNA gyrase subunit B/0.648
1ei1ANPDNA gyrase subunit B/0.562
3zkbANPDNA gyrase subunit B/0.519
1nhhANPDNA mismatch repair protein MutL/0.492
1yb5NAPQuinone oxidoreductase1.6.5.50.470
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.469
1xddAAYIntegrin alpha-L/0.465
1qo8FADFumarate reductase flavoprotein subunit/0.464
4ipeANPTNF receptor-associated protein 1/0.464
1fm4DXCMajor pollen allergen Bet v 1-L/0.462
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.462
1i59ANPChemotaxis protein CheA2.7.13.30.456
3zkdANPDNA gyrase subunit B/0.455
1zxmANPDNA topoisomerase 2-alpha5.99.1.30.454
2oapANPType II secretion system protein (GspE-2)/0.454
2q5g1FAPeroxisome proliferator-activated receptor delta/0.453
3gw9VNILanosterol 14-alpha-demethylase/0.453
4ipw1G7Mycocyclosin synthase1.14.21.90.452
4nxvGDPMitochondrial dynamics protein MID51/0.452
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.451
2p6lSAHDiphthine synthase/0.450
2znnS44Peroxisome proliferator-activated receptor alpha/0.450
3sp6IL2Peroxisome proliferator-activated receptor alpha/0.450
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.449
1g2aBB2Peptide deformylase3.5.1.880.448
1i59ADPChemotaxis protein CheA2.7.13.30.448
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.448
4g3jVNTLanosterol 14-alpha-demethylase/0.448
2wedPP6Penicillopepsin-13.4.23.200.447
3h86AP5Adenylate kinase/0.447
3raiX85Cyclin-dependent kinase 22.7.11.220.446
2dxvSAHDiphthine synthase/0.445
2gmhFADElectron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial1.5.5.10.445
4bfzZVZPantothenate kinase2.7.1.330.445
4g7gVFVLanosterol 14-alpha-demethylase/0.444
1tqf32PBeta-secretase 13.4.23.460.443
2e08SAHDiphthine synthase/0.443
3zh8C58Protein kinase C iota type2.7.11.130.443
4duhRLIDNA gyrase subunit B/0.443
4l0qNADAlcohol dehydrogenase class-3/0.443
2eglSAHDiphthine synthase/0.442
2gjlFMNNitronate monooxygenase1.13.12.160.442
2ooyATP5'-AMP-activated protein kinase subunit gamma/0.442
3dv3MEKDual specificity mitogen-activated protein kinase kinase 12.7.12.20.442
4kl9NDPDihydrofolate reductase1.5.1.30.442
4mv1ADPBiotin carboxylase6.3.4.140.442
1vfrFMNMajor NAD(P)H-flavin oxidoreductase1.6.990.441
2dshSAHDiphthine synthase/0.441
2qd4CHDFerrochelatase, mitochondrial4.99.1.10.441
2vojNADAlanine dehydrogenase1.4.1.10.441
4s26SAHPhosphomethylpyrimidine synthase, chloroplastic4.1.99.170.441
4uyf73BBromodomain-containing protein 2/0.441
5hwsNAP2-dehydropantoate 2-reductase/0.441
1gjvAGS[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial2.7.11.40.440
2owuSAHDiphthine synthase/0.440
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.440