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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
5bt52LOBromodomain-containing protein 2

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5bt52LOBromodomain-containing protein 2/1.000
4j1p1K0Bromodomain-containing protein 2/0.632
4aknS5BBromodomain-containing protein 2/0.605
4alhA9PBromodomain-containing protein 2/0.605
4c67L5SBromodomain-containing protein 4/0.603
4uyg73BBromodomain-containing protein 2/0.579
4py6R78Bromodomain protein, putative/0.578
4o74R78Bromodomain-containing protein 4/0.560
4gpj0Q1Bromodomain-containing protein 4/0.558
4alg1GHBromodomain-containing protein 2/0.551
4ir5IR5Bromodomain adjacent to zinc finger domain protein 2B/0.542
4cfkLY2Bromodomain-containing protein 4/0.539
5dfcEAMBromodomain-containing protein 2/0.539
4mr61K0Bromodomain-containing protein 2/0.537
4flpJQ1Bromodomain testis-specific protein/0.536
4hxr1A4Bromodomain-containing protein 4/0.535
4mr51K0Bromodomain-containing protein 2/0.532
4nr82LLBromodomain-containing protein 4/0.526
4mep24YBromodomain-containing protein 4/0.523
4a9nA9NBromodomain-containing protein 2/0.521
4bjx73BBromodomain-containing protein 4/0.521
4lyw21QBromodomain-containing protein 4/0.519
4nyw2O3CREB-binding protein/0.517
4bw39BMBromodomain-containing protein 4/0.513
4hbw14ZBromodomain-containing protein 4/0.511
2yemWSHBromodomain-containing protein 4/0.510
4a9oA9OBromodomain-containing protein 2/0.510
4j0s1H3Bromodomain-containing protein 4/0.510
4j0r1H2Bromodomain-containing protein 4/0.506
4nr52LLCREB-binding protein/0.506
4lrg1XBBromodomain-containing protein 4/0.505
4bw1S5BBromodomain-containing protein 4/0.503
4mr41K0Bromodomain-containing protein 4/0.502
4ogiR78Bromodomain-containing protein 4/0.501
4nyv15ECREB-binding protein/0.500
3aqaBYHBromodomain-containing protein 2/0.498
4hby13FBromodomain-containing protein 4/0.498
4nqmY1ZBromodomain-containing protein 4/0.496
3zyu1GHBromodomain-containing protein 4/0.495
4hxs1A3Bromodomain-containing protein 4/0.493
4a9mP9MBromodomain-containing protein 2/0.491
4bw2UTHBromodomain-containing protein 4/0.490
4men25KBromodomain-containing protein 4/0.490
4a9lP9LBromodomain-containing protein 4/0.489
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.488
2yelWSHBromodomain-containing protein 4/0.485
4c66H4CBromodomain-containing protein 4/0.485
4hxm1A8Bromodomain-containing protein 4/0.483
4o78SAVBromodomain-containing protein 4/0.482
4qzsJQ1Bromodomain-containing protein 4/0.482
4bw49B6Bromodomain-containing protein 4/0.479
4o71CPBBromodomain-containing protein 4/0.479
3svgODRBromodomain-containing protein 4/0.476
4lr61XABromodomain-containing protein 4/0.473
3b70NAPEnoyl reductase LovC10.471
3hadNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.471
1k6cMK1Gag-Pol polyprotein3.4.23.160.469
1likADNAdenosine kinase2.7.1.200.469
3nl6TPSUncharacterized protein/0.469
1booSAHModification methylase PvuII2.1.1.1130.468
2h9iEADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.468
3il1B5DGlutamate receptor 2/0.468
2a1tFADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.467
4j3i1K0Bromodomain-containing protein 4/0.464
3h6vNS6Glutamate receptor 2/0.463
4meq25OBromodomain-containing protein 4/0.463
4hxo1A6Bromodomain-containing protein 4/0.462
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.461
3b6zCO7Enoyl reductase LovC10.461
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.458
2a1mCAMCamphor 5-monooxygenase1.14.15.10.458
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.458
3ocgOCGMitogen-activated protein kinase 14/0.458
4e2bFMNDehydrogenase/0.457
3qlrNDPDihydrofolate reductase1.5.1.30.456
4hxn1A7Bromodomain-containing protein 4/0.456
2m56CAMCamphor 5-monooxygenase1.14.15.10.455
1mr9ACOStreptogramin A acetyltransferase2.3.10.454
4kfqKFQGlutamate receptor ionotropic, NMDA 1/0.453
3fln3FNMitogen-activated protein kinase 14/0.452
3glmCOOGlutaconyl-CoA decarboxylase alpha subunit/0.452
3qt62P0Mevalonate diphosphate decarboxylase/0.452
5eq1BEAPeregrin/0.452
4cfl8DQBromodomain-containing protein 4/0.451
3i59N6SCRP-like cAMP-activated global transcriptional regulator/0.450
3vt7VDXVitamin D3 receptor/0.450
5cwa0GAAnthranilate synthase component 14.1.3.270.450
1kkq471Peroxisome proliferator-activated receptor alpha/0.449
1nooCAHCamphor 5-monooxygenase1.14.15.10.449
1phePIYCamphor 5-monooxygenase1.14.15.10.449
3bbrBHYGlutamate receptor 2/0.449
4r1lADPPhenylacetate-coenzyme A ligase/0.449
1qlhNADAlcohol dehydrogenase E chain1.1.1.10.448
3a9wNADNDP-sugar epimerase/0.448
4f3i0S6Bromodomain-containing protein 4/0.448
4meo25VBromodomain-containing protein 4/0.448
5hynSAHHistone-lysine N-methyltransferase EZH22.1.1.430.448
2zz0FADThioredoxin reductase 1, cytoplasmic1.8.1.90.447
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.447
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.447
3umpATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.447
3stv3HOMethylketone synthase I/0.446
4jb1FADUDP-N-acetylenolpyruvoylglucosamine reductase/0.446
4jnkZHKL-lactate dehydrogenase A chain1.1.1.270.446
1e7qNAPGDP-L-fucose synthase/0.445
2ay95PVAromatic-amino-acid aminotransferase2.6.1.570.445
2om9AJAPeroxisome proliferator-activated receptor gamma/0.445
2qblCAMCamphor 5-monooxygenase1.14.15.10.445
2qbnCAMCamphor 5-monooxygenase1.14.15.10.445
2x0iNAIMalate dehydrogenase/0.445
2znq401Peroxisome proliferator-activated receptor delta/0.445
3awhFMNFMN-binding protein/0.445
4mwhATPCasein kinase II subunit alpha2.7.11.10.445
4y3zF41Endothiapepsin3.4.23.220.445
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.445
5ikrID8Prostaglandin G/H synthase 21.14.99.10.445
2p5uNADUDP-glucose 4-epimerase/0.444
2uxoTACHTH-type transcriptional regulator TtgR/0.444
4dieC5PCytidylate kinase/0.444
4qmxH8HSerine/threonine-protein kinase 242.7.11.10.444
4ryvZEAProtein LlR18A/0.444
5a3bAPRSIR2 family protein/0.444
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.443
1k6vXN2Gag-Pol polyprotein3.4.23.160.442
4inb1F6Gag protein/0.442
1ee9NADMethylenetetrahydrofolate dehydrogenase [NAD(+)]1.5.1.150.441
1fmlRTLRetinol dehydratase/0.441
1t86CAMCamphor 5-monooxygenase1.14.15.10.441
2brmDFZSerine/threonine-protein kinase Chk12.7.11.10.441
2xrlDXTTetracycline repressor protein class D/0.441
3cukFADD-amino-acid oxidase1.4.3.30.441
4c9oCAMCytochrome P450/0.441
4dijBLFE3 ubiquitin-protein ligase Mdm26.3.20.441
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA23.6.30.441
4zirANPEnergy-coupling factor transporter ATP-binding protein EcfA1/0.441
1bsvNDPGDP-L-fucose synthase/0.440
1dxqFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
1fwmCB3Thymidylate synthase/0.440
1ni4TPPPyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial1.2.4.10.440
1ni4TPPPyruvate dehydrogenase E1 component subunit beta, mitochondrial1.2.4.10.440
1osvCHCBile acid receptor/0.440
2bxmIMNSerum albumin/0.440
2ejvNADL-threonine 3-dehydrogenase/0.440
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.440
3da24MDCarbonic anhydrase 134.2.1.10.440
4fuyEK2Mitogen-activated protein kinase 12.7.11.240.440
4nqnY1ZBromodomain-containing protein 9/0.440
4uyf73BBromodomain-containing protein 2/0.440