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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
3gieACPSensor histidine kinase DesK2.7.13.3

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
3gieACPSensor histidine kinase DesK2.7.13.31.000
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.503
3qi4IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.486
1pkfEPDEpothilone C/D epoxidase1.140.484
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.484
1xoqROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.481
3g4iD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.480
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.479
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.478
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.476
3b9lAZZSerum albumin/0.475
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.475
3qlrQLRDihydrofolate reductase1.5.1.30.475
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.475
3s7a684Dihydrofolate reductase1.5.1.30.474
4gt8ADPSensor protein VraS2.7.13.30.474
4eiyZMAAdenosine receptor A2a/0.473
2f98NGVAklanonic acid methyl ester cyclase AcmA5.5.1.230.471
2w3aTOPDihydrofolate reductase1.5.1.30.471
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.470
4bfuZVUPantothenate kinase2.7.1.330.470
3jypNADQuinate/shikimate dehydrogenase (NAD(+))/0.469
3nxoD2BDihydrofolate reductase1.5.1.30.469
2jc6QPPCalcium/calmodulin-dependent protein kinase type 1D2.7.11.170.468
3fnfJPMEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.468
3t8xT8XT-cell surface glycoprotein CD1b/0.467
1ia2TQ4Dihydrofolate reductase1.5.1.30.466
4jib1L6cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.466
1gnwGTXGlutathione S-transferase F22.5.1.180.465
1q9mROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.465
1y2e5DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.464
3c0g3AMPeripheral plasma membrane protein CASK2.7.11.10.464
4boeCLRJapanin/0.464
1i58ACPChemotaxis protein CheA2.7.13.30.463
4h9753SDihydrofolate reductase1.5.1.30.463
1bwsNDPGDP-L-fucose synthase/0.462
1m78CLZDihydrofolate reductase1.5.1.30.462
4bgePYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.462
4gi2NAPCrotonyl-CoA carboxylase/reductase/0.462
1tbbROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.461
3ehjACPSensor histidine kinase DesK2.7.13.30.461
4nqgCZHMitrocomin/0.461
1udtVIAcGMP-specific 3',5'-cyclic phosphodiesterase/0.460
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.460
5epvACPBlue-light-activated histidine kinase2.7.13.30.460
1ia4TQ6Dihydrofolate reductase1.5.1.30.459
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.459
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.459
4equG6ISerine/threonine-protein kinase 102.7.11.10.459
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.459
1x8lOXRRetinol dehydratase/0.458
2ejzSAHDiphthine synthase/0.458
3d3p20AcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.458
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
3oafOAGDihydrofolate reductase1.5.1.30.458
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.458
4j8tDOGUncharacterized PhzA/B-like protein PA3332/0.458
3nxtD2EDihydrofolate reductase1.5.1.30.457
3sh25DRDihydrofolate reductase1.5.1.30.457
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.457
4h1e10JBeta-secretase 13.4.23.460.457
1el4CTZObelin/0.456
3abaFLICytochrome P450/0.456
3h3r14HCollagen type IV alpha-3-binding protein/0.456
3vg9ZMAAdenosine receptor A2a/0.456
4bubADPUDP-N-acetylmuramoyl-L-alanyl-D-glutamate--LD-lysine ligase/0.456
4jbtASDCytochrome P450 monooxygenase/0.456
1pd9CO4Dihydrofolate reductase1.5.1.30.455
2xkc4VQSerine/threonine-protein kinase Nek22.7.11.10.455
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.455
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3g4kROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.455
1gsfEAAGlutathione S-transferase A12.5.1.180.454
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.454
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.454
1zklIBMHigh affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A3.1.4.530.454
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.454
2vd0D27Hematopoietic prostaglandin D synthase/0.454
2ydoADNAdenosine receptor A2a/0.454
3br3ETHTH-type transcriptional regulator QacR/0.454
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.454
4ddl0JQcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.454
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
4iarERM5-hydroxytryptamine receptor 1B/0.454
4j531J4Serine/threonine-protein kinase PLK12.7.11.210.454
4kp61S1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.454
1gt5BZQOdorant-binding protein/0.453
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3g58988cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.453
3nrrD16Bifunctional dihydrofolate reductase-thymidylate synthase/0.453
3qppPFWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.453
4cdmFO1Deoxyribodipyrimidine photolyase/0.453
5irnADPNucleotide binding oligomerization domain containing 2/0.453
1aoeGW3Dihydrofolate reductase1.5.1.30.452
1crbRTLRetinol-binding protein 1/0.452
2uxhQUEHTH-type transcriptional regulator TtgR/0.452
3mdvCL6Cholesterol 24-hydroxylase/0.452
3qm4PN0Cytochrome P450 2D6/0.452
3qpnPFKcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.452
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.452
4h3j10WBeta-secretase 13.4.23.460.452
4jazSTLPeroxisome proliferator-activated receptor gamma/0.452
4m6l21VDihydrofolate reductase1.5.1.30.452
1oynROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.451
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.451
2ewaSB2Mitogen-activated protein kinase 14/0.451
2x7hPFNProstaglandin reductase 310.451
4hbm0Y7E3 ubiquitin-protein ligase Mdm26.3.20.451
4jlj1NMDeoxycytidine kinase2.7.1.740.451
5k2bZMAAdenosine receptor A2a/0.451
1kkq471Peroxisome proliferator-activated receptor alpha/0.450
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.450
2y30SM8Putative repressor SimReg2/0.450
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.450
3ozd4CTS-methyl-5'-thioadenosine phosphorylase/0.450
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.450
4b12C23Glycylpeptide N-tetradecanoyltransferase/0.450
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.450
4fk3325Serine/threonine-protein kinase B-raf2.7.11.10.450
5dp2NAPCurF/0.450
5k2aZMAAdenosine receptor A2a/0.450
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.449
2zs9ADPPantothenate kinase2.7.1.330.449
3cv9VDXVitamin D3 dihydroxylase/0.449
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.449
3n5wXFJNitric oxide synthase, brain1.14.13.390.449
3sgv2BJDitrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.449
3um5CP6Bifunctional dihydrofolate reductase-thymidylate synthase/0.449
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.449
3zoiM2WIsopenicillin N synthase1.21.3.10.449
4c3yFAD3-ketosteroid dehydrogenase/0.449
4h9506UDihydrofolate reductase1.5.1.30.449
4h9614QDihydrofolate reductase1.5.1.30.449
4k81GTPGTPase HRas/0.449
4r7uUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.449
1be4PCGNucleoside diphosphate kinase A 22.7.4.60.448
3bhlTHGThymidylate synthase/0.448
3d5wADPSerine/threonine-protein kinase PLK/0.448
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3g70A5TRenin3.4.23.150.448
3iro2CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.448
3lfeZ84Mitogen-activated protein kinase 14/0.448
3mqe416Prostaglandin G/H synthase 21.14.99.10.448
3ntgD72Prostaglandin G/H synthase 21.14.99.10.448
3w1wCHDFerrochelatase, mitochondrial4.99.1.10.448
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.448
1e1qADPATP synthase subunit beta, mitochondrial3.6.3.140.447
1t4cCOAFormyl-CoA:oxalate CoA-transferase/0.447
3v0p4GWHisto-blood group ABO system transferase/0.447
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.447
4dbw511Aldo-keto reductase family 1 member C3/0.447
4h3g10QBeta-secretase 13.4.23.460.447
1al7HSTPeroxisomal (S)-2-hydroxy-acid oxidase1.1.3.150.446
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.446
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.446
2ovyPFJcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
2rqfJH3Hemolymph juvenile hormone binding protein/0.446
3mpiFADGlutaryl-CoA dehydrogenase1.3.99.320.446
3qlwN22Dihydrofolate reductase1.5.1.30.446
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4h6zACOAlpha-tubulin N-acetyltransferase 1/0.446
4j6cSTRCytochrome P450 monooxygenase/0.446
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.445
2q9fC3SCholesterol 24-hydroxylase/0.445
2xnn430Serine/threonine-protein kinase Nek22.7.11.10.445
3cmfPDN3-oxo-5-beta-steroid 4-dehydrogenase/0.445
3tubFPUTyrosine-protein kinase SYK2.7.10.20.445
3u8hBHPPhospholipase A2, membrane associated/0.445
3zeiAWHO-acetylserine sulfhydrylase/0.445
4ib4ERM5-hydroxytryptamine receptor 2B/0.445
1a2nTETUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.444
1ejbINJ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
1ia1TQ3Dihydrofolate reductase1.5.1.30.444
1jf2CZHObelin/0.444
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.444
1q5dEPBEpothilone C/D epoxidase1.140.444
2z1qFADAcyl-CoA dehydrogenase/0.444
2zb8IMNProstaglandin reductase 21.3.1.480.444
3fhxPXLPyridoxal kinase2.7.1.350.444
3hucG97Mitogen-activated protein kinase 14/0.444
3ix8TX3Transcriptional activator protein LasR/0.444
3upkUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.444
3wv9FEGHmd co-occurring protein HcgE/0.444
4ixeIXEDihydrofolate reductase1.5.1.30.444
4kfj1R0Dihydrofolate reductase1.5.1.30.444
4m4821BSodium-dependent dopamine transporter/0.444
4muw2F4cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
4mvh2F5cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
5dozNDPJamJ/0.444
5k2cZMAAdenosine receptor A2a/0.444
1dgfNDPCatalase1.11.1.60.443
1n71COAAac(6')-Ii protein/0.443
1qoqIGPTryptophan synthase alpha chain/0.443
2fjm073Tyrosine-protein phosphatase non-receptor type 13.1.3.480.443
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.443
3nxvD2FDihydrofolate reductase1.5.1.30.443
3tvxPNXcAMP-specific 3',5'-cyclic phosphodiesterase 4A3.1.4.530.443
4giu636Anthranilate phosphoribosyltransferase/0.443
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4hw319GInduced myeloid leukemia cell differentiation protein Mcl-1/0.443
4iae1DXAlr2278 protein/0.443
4j6dTESCytochrome P450 monooxygenase/0.443
3emlZMAAdenosine receptor A2a/0.443
1fm4DXCMajor pollen allergen Bet v 1-L/0.442
1k7fIAVTryptophan synthase alpha chain/0.442
1xdsDRAAclacinomycin 10-hydroxylase RdmB4.1.10.442
2ouyCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
2uxpCLMHTH-type transcriptional regulator TtgR/0.442
2y1oT26UDP-N-acetylmuramoylalanine--D-glutamate ligase6.3.2.90.442
3ezpB3NHistone deacetylase 83.5.1.980.442
3h1vTK1Glucokinase2.7.1.20.442
3hmvHBTcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.442
3iakEV1cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
3nwlNDPCatalase1.11.1.60.442
3oezSTIProto-oncogene tyrosine-protein kinase Src2.7.10.20.442
3pz23PZGeranylgeranyl transferase type-2 subunit beta2.5.1.600.442
3swqEPUUDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.442
3v94WYQPhosphodiesterase/0.442
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.442
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.442
1t1rIMB1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.441
2xvv9DNSerum albumin/0.441
2yac937Serine/threonine-protein kinase PLK12.7.11.210.441
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.441
3sgy06WDihydrofolate reductase1.5.1.30.441
3vf60H6Glucokinase2.7.1.20.441
3vi7CBDHematopoietic prostaglandin D synthase/0.441
3znsNU7Histone deacetylase 73.5.1.980.441
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.441
4g95OAGDihydrofolate reductase1.5.1.30.441
5jtbZMAAdenosine receptor A2a/0.441
5iua6DXAdenosine receptor A2a/0.441
1m9m6NINitric oxide synthase, endothelial1.14.13.390.440
1r2jFADFkbI/0.440
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.440
1xddAAYIntegrin alpha-L/0.440
1zs6ADPNucleoside diphosphate kinase 32.7.4.60.440
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.440
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3h3sH15Collagen type IV alpha-3-binding protein/0.440