Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
4cgiNZLIntegrase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4cgiNZLIntegrase/1.000
3zsvZSVIntegrase/0.667
4cebZSVIntegrase/0.667
4cgd8P3Integrase/0.618
4cec2SSIntegrase/0.603
4ceqQCHIntegrase/0.599
4cfbOM3Integrase/0.588
4cfdS8YIntegrase/0.588
3zsrO3NIntegrase/0.586
4cezO3NIntegrase/0.586
4ceoG0TIntegrase/0.583
4cgjNZLIntegrase/0.580
4cjfRVNIntegrase/0.579
4cf23GMIntegrase/0.574
4cfaWOPIntegrase/0.574
4cfc7NVIntegrase/0.574
4cesNFWIntegrase/0.572
4chqCWUIntegrase/0.572
3zt3ZT4Integrase/0.571
4cf8V7HIntegrase/0.571
3zswZSWIntegrase/0.570
4cefD0TIntegrase/0.569
4cjuJNSIntegrase/0.569
4cj4S3GIntegrase/0.567
4cieY7NIntegrase/0.565
4cj3E4FIntegrase/0.563
4ck1OM1Integrase/0.562
4ceaZSWIntegrase/0.561
4cerVL4Integrase/0.560
4cf1IY7Integrase/0.558
4ce9O3NIntegrase/0.557
4ced9NSIntegrase/0.557
4cjqVXOIntegrase/0.557
3zsyOM3Integrase/0.556
4cggK5QIntegrase/0.551
4cigX0PIntegrase/0.550
4cifJDXIntegrase/0.548
3zt2ZT2Integrase/0.547
4chyC5QIntegrase/0.544
4cj54VWIntegrase/0.543
4cjkH39Integrase/0.543
4cghLOZIntegrase/0.542
4cjp4D2Integrase/0.542
4ck2NVUIntegrase/0.541
4ceeB0TIntegrase/0.540
4cjeQ31Integrase/0.540
4ck3K1TIntegrase/0.540
3zsxN44Integrase/0.538
3zt1OM1Integrase/0.536
3zt0ZT0Integrase/0.535
4cf0O5UIntegrase/0.530
4cjsL0YIntegrase/0.525
3zsqO4NIntegrase/0.516
4cjrFYMIntegrase/0.501
3zcmPX3Integrase/0.500
3zszOM2Integrase/0.497
2znq401Peroxisome proliferator-activated receptor delta/0.489
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.487
2abbFMNPentaerythritol tetranitrate reductase/0.480
2xvu9DNSerum albumin/0.475
1bsvNDPGDP-L-fucose synthase/0.474
4b8wNAPGDP-L-fucose synthase1.1.1.2710.474
4eakATP5'-AMP-activated protein kinase subunit gamma-1/0.474
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.473
1ia1NDPDihydrofolate reductase1.5.1.30.471
1t2cNAIL-lactate dehydrogenase1.1.1.270.471
1f17NAIHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.470
1ma0NADAlcohol dehydrogenase class-31.1.1.10.470
1sowNADL-lactate dehydrogenase1.1.1.270.469
3w4yFADMitochondrial FAD-linked sulfhydryl oxidase ERV11.8.3.20.469
1pzgA3DLactate dehydrogenase/0.468
1bwsNDPGDP-L-fucose synthase/0.467
3qt62P0Mevalonate diphosphate decarboxylase/0.467
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.466
4i6gFADCryptochrome-2/0.466
4ure1PSCyclohexanol dehydrogenase/0.466
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.465
1pzhNADLactate dehydrogenase/0.465
3r6sCMPCRP-like cAMP-activated global transcriptional regulator/0.465
4du82P0Mevalonate diphosphate decarboxylase/0.465
3f1kNAPUncharacterized oxidoreductase YciK10.464
3up0D7SaceDAF-12/0.464
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.463
4mdhNADMalate dehydrogenase, cytoplasmic1.1.1.370.463
4bzo676Serine/threonine-protein kinase pim-12.7.11.10.462
4guuFA9Lysine-specific histone demethylase 1B10.461
4y8wSTRSteroid 21-hydroxylase/0.461
1n2sNAIdTDP-4-dehydrorhamnose reductase1.1.1.1330.460
2c1bCQPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.460
4q71FADBifunctional protein PutA/0.460
2ohvNHLGlutamate racemase/0.459
3p62FMNPentaerythritol tetranitrate reductase/0.459
4cgfUJ6Integrase/0.459
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.458
2v9jATP5'-AMP-activated protein kinase subunit gamma-1/0.458
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.457
2ggsNDPdTDP-4-dehydrorhamnose reductase/0.457
2hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.457
4xwtU5PRibonuclease J/0.457
1dirNADDihydropteridine reductase1.5.1.340.456
1h63FMNPentaerythritol tetranitrate reductase/0.456
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.456
2hunNAD336aa long hypothetical dTDP-glucose 4,6-dehydratase/0.456
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.456
5ez7FADProbable FAD-dependent oxidoreductase PA4991/0.456
1ay0TPPTransketolase 12.2.1.10.455
1ib6NADMalate dehydrogenase/0.455
1powFADPyruvate oxidase1.2.3.30.455
3hdhNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.455
4q72FADBifunctional protein PutA/0.455
1dxoFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.454
1gqtACPRibokinase/0.454
1u1cBAUUridine phosphorylase2.4.2.30.454
2a94AP0L-lactate dehydrogenase1.1.1.270.454
2g5cNADPrephenate dehydrogenase/0.454
4dymIYZActivin receptor type-12.7.11.300.454
2y8lADP5'-AMP-activated protein kinase subunit gamma-1/0.453
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.453
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.453
4i1iNADMalate dehydrogenase/0.453
2e9dB76Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.452
2p83MR0Beta-secretase 13.4.23.460.452
3dafFEG5,10-methenyltetrahydromethanopterin hydrogenase1.12.98.20.452
4a4zANPAntiviral helicase SKI23.6.4.130.452
4c34STUcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
4nd4NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.452
4z63ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.452
1kl2FONSerine hydroxymethyltransferase/0.451
1vyrFMNPentaerythritol tetranitrate reductase/0.451
1y57MPZProto-oncogene tyrosine-protein kinase Src2.7.10.20.451
2b4qNAPRhamnolipids biosynthesis 3-oxoacyl-[acyl-carrier-protein] reductase1.1.1.1000.451
2ft9CHDFatty acid-binding protein 2, liver/0.451
4cvmANPUDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase/0.451
4jazSTLPeroxisome proliferator-activated receptor gamma/0.451
1p31EPUUDP-N-acetylmuramate--L-alanine ligase6.3.2.80.450
2v59LZKBiotin carboxylase6.3.4.140.450
2zbaZBATrichothecene 3-O-acetyltransferase/0.450
3hadNADHydroxyacyl-coenzyme A dehydrogenase, mitochondrial1.1.1.350.450
3qlrNDPDihydrofolate reductase1.5.1.30.450
4fw8NAI3-oxoacyl-(Acyl-carrier-protein) reductase/0.450
4uymVOR14-alpha sterol demethylase Cyp51B/0.450
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.450
1h51FMNPentaerythritol tetranitrate reductase/0.449
1nzdUPGDNA beta-glucosyltransferase/0.449
1rfuADPPyridoxal kinase2.7.1.350.449
3mg3ECHOrange carotenoid-binding protein/0.449
3orfNADDihydropteridine reductase1.5.1.340.449
3vt5YI2Vitamin D3 receptor/0.449
5idwNAPShort-chain dehydrogenase/reductase SDR/0.449
1crbRTLRetinol-binding protein 1/0.448
1kc1NDPdTDP-4-dehydrorhamnose reductase1.1.1.1330.448
1m78NDPDihydrofolate reductase1.5.1.30.448
2iko7IGRenin3.4.23.150.448
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.448
3a3yOBNSodium/potassium-transporting ATPase subunit alpha/0.448
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.448
4fg8ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.448
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.448
4wdgA2P2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.448
5e8ySTUTGF-beta receptor type-22.7.11.300.448
5hwrCOAHydroxymethylglutaryl-CoA synthase/0.448
1d4aFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.447
1kquBR4Phospholipase A2, membrane associated/0.447
3g5qFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.447
3lqfNADGalactitol dehydrogenase/0.447
3vjoANPEpidermal growth factor receptor2.7.10.10.447
3vt8YI3Vitamin D3 receptor/0.447
3w0yDS4Vitamin D3 receptor/0.447
4bfzZVZPantothenate kinase2.7.1.330.447
4k28NADShikimate dehydrogenase family protein/0.447
1dhrNADDihydropteridine reductase1.5.1.340.446
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.446
1kr2TADNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.446
3f90FMNFlavodoxin/0.446
3gu83GUDeath-associated protein kinase 12.7.11.10.446
3nxxNDPDihydrofolate reductase1.5.1.30.446
4a8v2ANMajor pollen allergen Bet v 1-J/0.446
4kl9NDPDihydrofolate reductase1.5.1.30.446
1b8uNADMalate dehydrogenase/0.445
2a92NAIL-lactate dehydrogenase/0.445
2cf6NAPCinnamyl alcohol dehydrogenase 51.1.1.1950.445
3oetNADErythronate-4-phosphate dehydrogenase/0.445
4bb3KKAIsopenicillin N synthase1.21.3.10.445
4bznUGXSerine/threonine-protein kinase pim-12.7.11.10.445
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.445
1nzfUPGDNA beta-glucosyltransferase/0.444
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.444
2bl4NADLactaldehyde reductase1.1.1.770.444
2ebaFADPutative glutaryl-CoA dehydrogenase/0.444
2gv8NDPThiol-specific monooxygenase1.14.130.444
2hjrAPRMalate dehydrogenase, adjacent gene encodes predicted lactate dehydrogenase/0.444
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.444
2xc3RT8Steroid C26-monooxygenase1.14.13.1410.444
2z1mNDPGDP-mannose 4,6-dehydratase/0.444
4cdmFO1Deoxyribodipyrimidine photolyase/0.444
4egbNADdTDP-glucose 4,6-dehydratase/0.444
4jx1CAHCamphor 5-monooxygenase1.14.15.10.444
4nd3NADLactate dehydrogenase, adjacent gene encodes predicted malate dehydrogenase/0.444
4yerADPAntibiotic ABC transporter, ATP-binding protein, putative/0.444
4z64ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.444
1fm4DXCMajor pollen allergen Bet v 1-L/0.443
1fxsNAPGDP-L-fucose synthase/0.443
1h74ADPHomoserine kinase2.7.1.390.443
1xe65FPPlasmepsin-23.4.23.390.443
2c29NAPDihydroflavonol 4-reductase/0.443
2ft0ACOdTDP-fucosamine acetyltransferase/0.443
2w2lNADD-mandelate dehydrogenase/0.443
3d4pNADL-lactate dehydrogenase 11.1.1.270.443
3kb1ADPIron-sulfur cluster carrier protein/0.443
3p82FMNPentaerythritol tetranitrate reductase/0.443
3zbsOVE2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.443
4ejmNAPPutative zinc-binding dehydrogenase/0.443
4gj30XPNon-receptor tyrosine-protein kinase TYK22.7.10.20.443
1a8pFADFerredoxin--NADP reductase/0.442
1kkq471Peroxisome proliferator-activated receptor alpha/0.442
1nytNAPShikimate dehydrogenase (NADP(+))/0.442
1uxjNADMalate dehydrogenase/0.442
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
2eklNADD-3-phosphoglycerate dehydrogenase/0.442
2oapANPType II secretion system protein (GspE-2)/0.442
2q2qNADBeta-D-hydroxybutyrate dehydrogenase/0.442
3c16FOKAdenylate cyclase type 2/0.442
3c16FOKAdenylate cyclase type 5/0.442
3i0pNADMalate dehydrogenase, putative/0.442
3ijdC2FMethylenetetrahydrofolate reductase/0.442
3lsiFADPyranose 2-oxidase/0.442
3oadLPORenin3.4.23.150.442
4a83DXCMajor pollen allergen Bet v 1-A/0.442
4e4qRRHPeroxisome proliferator-activated receptor gamma/0.442
4e8yIHAD-beta-D-heptose 7-phosphate kinase/0.442
4l4xNDPAmphI/0.442
4wda2AM2',3'-cyclic-nucleotide 3'-phosphodiesterase3.1.4.370.442
1axwMTXThymidylate synthase/0.441
1b8vNADMalate dehydrogenase/0.441
2fnaADPUncharacterized protein/0.441
2xrwANPMitogen-activated protein kinase 82.7.11.240.441
3cy2MB9Serine/threonine-protein kinase pim-12.7.11.10.441
3ha5SFGHydroxymycolate synthase MmaA42.1.10.441
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.441
4e2dFMNDehydrogenase/0.441
4z24FADPutative GMC-type oxidoreductase R13510.441
1fmlRTLRetinol dehydratase/0.440
1gzuNMNNicotinamide/nicotinic acid mononucleotide adenylyltransferase 12.7.7.10.440
1j49NADD-lactate dehydrogenase1.1.1.280.440
1ozhHE3Acetolactate synthase, catabolic2.2.1.60.440
1t2dNADL-lactate dehydrogenase1.1.1.270.440
1w4zNAPPutative ketoacyl reductase1.3.10.440
1y0s331Peroxisome proliferator-activated receptor delta/0.440
1zemNADXylitol dehydrogenase/0.440
2b4tAESGlyceraldehyde-3-phosphate dehydrogenase/0.440
2hamC33Vitamin D3 receptor/0.440
2uxoTACHTH-type transcriptional regulator TtgR/0.440
2w3bNDPDihydrofolate reductase1.5.1.30.440
3gbuATPUncharacterized sugar kinase PH14592.7.10.440
3h3t16HCollagen type IV alpha-3-binding protein/0.440
3pe2E1BCasein kinase II subunit alpha2.7.11.10.440
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.440
4iteTEYVitamin D3 receptor/0.440
4kgmATPUncharacterized protein/0.440
4q0a4OAVitamin D3 receptor A/0.440
5br4NADLactaldehyde reductase1.1.1.770.440