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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
4cec2SSIntegrase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4cec2SSIntegrase/1.000
3zt1OM1Integrase/0.671
4ceqQCHIntegrase/0.636
4cf8V7HIntegrase/0.611
4cefD0TIntegrase/0.601
4cgd8P3Integrase/0.597
4cjuJNSIntegrase/0.594
4ceoG0TIntegrase/0.588
4cesNFWIntegrase/0.583
4cgiNZLIntegrase/0.578
4cjfRVNIntegrase/0.577
4cfaWOPIntegrase/0.575
4cerVL4Integrase/0.572
3zsrO3NIntegrase/0.564
4cezO3NIntegrase/0.564
4cf0O5UIntegrase/0.564
4ceaZSWIntegrase/0.562
4ced9NSIntegrase/0.556
4cj3E4FIntegrase/0.555
4cfc7NVIntegrase/0.551
4cfdS8YIntegrase/0.550
4cjrFYMIntegrase/0.550
4cf23GMIntegrase/0.549
4ck2NVUIntegrase/0.548
3zsvZSVIntegrase/0.544
4cebZSVIntegrase/0.544
3zt3ZT4Integrase/0.542
4ceeB0TIntegrase/0.542
4cifJDXIntegrase/0.541
3zswZSWIntegrase/0.540
4cggK5QIntegrase/0.540
4cjqVXOIntegrase/0.539
4cghLOZIntegrase/0.536
4cgjNZLIntegrase/0.535
4cieY7NIntegrase/0.534
4cjeQ31Integrase/0.534
4cigX0PIntegrase/0.532
4cf1IY7Integrase/0.531
4ck1OM1Integrase/0.528
4cjkH39Integrase/0.527
4ce9O3NIntegrase/0.526
4chqCWUIntegrase/0.526
3zt0ZT0Integrase/0.525
3zsyOM3Integrase/0.524
4cfbOM3Integrase/0.524
4cjp4D2Integrase/0.523
3zsqO4NIntegrase/0.521
3zsxN44Integrase/0.515
4ck3K1TIntegrase/0.511
4cj54VWIntegrase/0.506
3zt2ZT2Integrase/0.496
4chyC5QIntegrase/0.489
4cj4S3GIntegrase/0.485
4cjsL0YIntegrase/0.484
3zszOM2Integrase/0.471
3zcmPX3Integrase/0.470
3lqfNADGalactitol dehydrogenase/0.467
1di8DTQCyclin-dependent kinase 22.7.11.220.465
1rfuADPPyridoxal kinase2.7.1.350.463
4mdhNADMalate dehydrogenase, cytoplasmic1.1.1.370.462
4fc7NAPPeroxisomal 2,4-dienoyl-CoA reductase1.3.1.340.461
3cblSTUTyrosine-protein kinase Fes/Fps2.7.10.20.460
3kb1ADPIron-sulfur cluster carrier protein/0.460
4jx1CAHCamphor 5-monooxygenase1.14.15.10.459
1bdbNADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase/0.458
3bv7NAP3-oxo-5-beta-steroid 4-dehydrogenase/0.458
3wv9FEGHmd co-occurring protein HcgE/0.458
5iubCLRAdenosine receptor A2a/0.458
1nffNAD3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.456
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.456
3slkNDPPolyketide synthase extender module 2/0.456
4ejmNAPPutative zinc-binding dehydrogenase/0.456
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.456
1tehNADAlcohol dehydrogenase class-31.1.1.10.454
4ead0NPThymidine phosphorylase2.4.2.40.454
2a94AP0L-lactate dehydrogenase1.1.1.270.453
2r7b2533-phosphoinositide-dependent protein kinase 12.7.11.10.453
2rg6287Mitogen-activated protein kinase 14/0.453
3r354CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.453
5iua6DXAdenosine receptor A2a/0.453
1wwkNAD307aa long hypothetical phosphoglycerate dehydrogenase/0.452
2cig1DGDihydrofolate reductase1.5.1.30.452
2w0jZATSerine/threonine-protein kinase Chk22.7.11.10.452
3u4cNDPNADPH-dependent reductase BacG/0.452
4tvbNADHomospermidine synthase2.5.1.440.452
2ejvNADL-threonine 3-dehydrogenase/0.451
2ylzFADPhenylacetone monooxygenase1.14.13.920.451
3fskRO6Mitogen-activated protein kinase 14/0.451
4e8yIHAD-beta-D-heptose 7-phosphate kinase/0.451
4eiyZMAAdenosine receptor A2a/0.451
4q71FADBifunctional protein PutA/0.451
5iu4ZMAAdenosine receptor A2a/0.451
2e9dB76Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.450
2y0mACOHistone acetyltransferase KAT8/0.450
4m87NADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.450
4y8wSTRSteroid 21-hydroxylase/0.450
3zuyTCHTransporter/0.449
4lcg1WMUDP-3-O-acyl-N-acetylglucosamine deacetylase/0.449
5k2dZMAAdenosine receptor A2a/0.449
1powFADPyruvate oxidase1.2.3.30.448
2xvu9DNSerum albumin/0.448
3atzFMNProstaglandin F2a synthase/0.448
3cs8BRLPeroxisome proliferator-activated receptor gamma/0.448
1kc1NDPdTDP-4-dehydrorhamnose reductase1.1.1.1330.447
1nzdUPGDNA beta-glucosyltransferase/0.447
2i5bADPPyridoxine kinase/0.447
3drcMTXDihydrofolate reductase1.5.1.30.447
3g8eIS1Nicotinamide phosphoribosyltransferase2.4.2.120.447
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.447
3triNAPPyrroline-5-carboxylate reductase/0.447
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
4q73FADBifunctional protein PutA/0.447
1culFOKAdenylate cyclase type 2/0.446
1culFOKAdenylate cyclase type 5/0.446
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.446
3bv2P38Mitogen-activated protein kinase 14/0.446
3clbNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.446
3dt1P40Mitogen-activated protein kinase 14/0.446
3v8w0G2Tyrosine-protein kinase ITK/TSK2.7.10.20.446
4lva20MNicotinamide phosphoribosyltransferase2.4.2.120.446
5dp2NAPCurF/0.446
5iu86DZAdenosine receptor A2a/0.446
1fm9570Peroxisome proliferator-activated receptor gamma/0.445
1kboFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.445
3a4vNADNDP-sugar epimerase/0.445
3qlrNDPDihydrofolate reductase1.5.1.30.445
1v9aSAHUncharacterized protein/0.444
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.444
2vttLZDCyclin-dependent kinase 22.7.11.220.444
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.444
3mpt1GKMitogen-activated protein kinase 14/0.444
4a83DXCMajor pollen allergen Bet v 1-A/0.444
4ft5H2KSerine/threonine-protein kinase Chk12.7.11.10.444
1gqtACPRibokinase/0.443
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.443
1ma0NADAlcohol dehydrogenase class-31.1.1.10.443
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.443
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.443
2xyuQ9GEphrin type-A receptor 42.7.10.10.443
2yxuATPPyridoxal kinase2.7.1.350.443
3dopNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.443
3mw9NAIGlutamate dehydrogenase 1, mitochondrial1.4.1.30.443
3oibFDAPutative acyl-CoA dehydrogenase/0.443
1zrzBI1Protein kinase C iota type2.7.11.130.442
2d29FADAcyl-CoA dehydrogenase/0.442
2givACOHistone acetyltransferase KAT8/0.442
2yaaATPDeath-associated protein kinase 2/0.442
3flyFLYMitogen-activated protein kinase 14/0.442
4mlp2CXCryptochrome-2/0.442
5k2aZMAAdenosine receptor A2a/0.442
1tj0FADBifunctional protein PutA1.5.5.20.441
3da24MDCarbonic anhydrase 134.2.1.10.441
3uylTYDProbable NDP-rhamnosyltransferase/0.441
4i9h1E4L-lactate dehydrogenase A chain1.1.1.270.441
1jtvTESEstradiol 17-beta-dehydrogenase 11.1.1.620.440
2npxNADNADH peroxidase1.11.1.10.440
3hdmMMGSerine/threonine-protein kinase Sgk12.7.11.10.440
3invNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
4m4922YL-lactate dehydrogenase A chain1.1.1.270.440
4wdb2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.440
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440