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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
2pufGUNHTH-type transcriptional repressor PurR

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
2pufGUNHTH-type transcriptional repressor PurR/1.000
2pucGUNHTH-type transcriptional repressor PurR/0.544
2in6839Wee1-like protein kinase2.7.10.20.505
2z2w770Wee1-like protein kinase2.7.10.20.494
2io6330Wee1-like protein kinase2.7.10.20.490
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.490
4wh3ATPN-acetylhexosamine 1-kinase2.7.1.1620.478
1ao8MTXDihydrofolate reductase1.5.1.30.477
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.477
4fw05KJNitric oxide synthase, brain1.14.13.390.477
4g34924Eukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.477
1x8b824Wee1-like protein kinase2.7.10.20.475
2fzjDH3Dihydrofolate reductase1.5.1.30.475
2o8h227cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.473
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.473
3g5sFADMethylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase TrmFO/0.473
4zvmDM2Ribosyldihydronicotinamide dehydrogenase [quinone]/0.473
1hfqMOTDihydrofolate reductase1.5.1.30.471
1mq0BRDCytidine deaminase3.5.4.50.471
2h447CAcGMP-specific 3',5'-cyclic phosphodiesterase/0.471
4wh2ADPN-acetylhexosamine 1-kinase2.7.1.1620.471
1f28F89Thymidylate synthase2.1.1.450.470
1g28FMNPHY3/0.470
3biz61EWee1-like protein kinase2.7.10.20.470
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.470
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.469
1rf9DBRCamphor 5-monooxygenase1.14.15.10.468
3nhwZXZRibosyldihydronicotinamide dehydrogenase [quinone]/0.468
4fhf0TTSpore photoproduct lyase/0.468
4g310WHEukaryotic translation initiation factor 2-alpha kinase 32.7.11.10.468
4gqiM49Ribosyldihydronicotinamide dehydrogenase [quinone]/0.468
4mvh2F5cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.467
4zvnFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.467
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.466
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
4ugaQ05Nitric oxide synthase oxygenase1.14.13.1650.466
1sg0STLRibosyldihydronicotinamide dehydrogenase [quinone]/0.465
1w06W05Isopenicillin N synthase1.21.3.10.465
3cr0809Wee1-like protein kinase2.7.10.20.465
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.465
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.465
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.465
4rh10TTSpore photoproduct lyase/0.465
1q6nP90Tyrosine-protein phosphatase non-receptor type 13.1.3.480.464
2fai459Estrogen receptor/0.464
3sai9DRDihydrofolate reductase/0.464
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.464
1sojIBMcGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.463
1uwzTHUCytidine deaminase3.5.4.50.463
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.463
2v95HCYCorticosteroid-binding globulin/0.463
3dylIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.463
1dibL34C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.462
1mkdZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.462
1pd9CO4Dihydrofolate reductase1.5.1.30.462
2ewaSB2Mitogen-activated protein kinase 14/0.462
2yg4FADPutrescine oxidase/0.462
3sn7540cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.462
4ajgF07cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.462
4dju0KKBeta-secretase 13.4.23.460.462
4k5fQ14Nitric oxide synthase, brain1.14.13.390.462
1so2666cGMP-inhibited 3',5'-cyclic phosphodiesterase B3.1.4.170.461
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.461
4fvz4KJNitric oxide synthase, brain1.14.13.390.461
3n5yXFLNitric oxide synthase, brain1.14.13.390.460
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.460
4h6pFMNChromate reductase/0.460
4hshQEIQueuine tRNA-ribosyltransferase2.4.2.290.460
2y0jAXCcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.459
2zzaFOLDihydrofolate reductase/0.459
3dqrJI2Nitric oxide synthase, brain1.14.13.390.459
3dy8IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.459
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.459
3zv7NHGAcetylcholinesterase3.1.1.70.459
4llkMEWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.459
1th6OINBasic phospholipase A2 VRV-PL-VIIIa3.1.1.40.458
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.458
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
3gtsD3MDdmC/0.458
3n3zIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.458
4cdmFO1Deoxyribodipyrimidine photolyase/0.458
4dk50KOPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.458
4hni16WCasein kinase I isoform epsilon2.7.11.10.458
5ahkFADAcetolactate synthase II, large subunit/0.458
3qi4IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.457
3uxe465Ribosyldihydronicotinamide dehydrogenase [quinone]/0.457
3zecANPAdenosine monophosphate-protein transferase SoFic2.7.7.n10.457
4nt3ZAWLactoperoxidase1.11.1.70.457
1u1f183Uridine phosphorylase2.4.2.30.456
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.456
3d5wADPSerine/threonine-protein kinase PLK/0.456
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
3nhfVVVRibosyldihydronicotinamide dehydrogenase [quinone]/0.456
3oqkS52Renin3.4.23.150.456
3qh23NMThiazole tautomerase/0.456
3ufsHW6Nitric oxide synthase, brain1.14.13.390.456
3vv8B02Beta-secretase 13.4.23.460.456
4djw0KPBeta-secretase 13.4.23.460.456
4gki0JNAminoglycoside 3'-phosphotransferase AphA1-IAB/0.456
4jq4IMNAldo-keto reductase family 1 member C2/0.456
3ny8JRZBeta-2 adrenergic receptor/0.456
1tilATPAnti-sigma F factor/0.455
1yhjR6CPyridoxal kinase2.7.1.350.455
3kozZ97D-ornithine 4,5-aminomutase subunit beta/0.455
4l8u9AZSerum albumin/0.455
1jtkTHUCytidine deaminase3.5.4.50.454
2p2bCOAAcetyl-coenzyme A synthetase/0.454
2xysSY9Soluble acetylcholine receptor/0.454
2zcvNDPQuinone oxidoreductase 21.6.5.20.454
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3nn6HNK6-hydroxy-L-nicotine oxidase/0.454
3sa27DRDihydrofolate reductase/0.454
3up3XCAaceDAF-12/0.454
4fizCUE17beta-hydroxysteroid dehydrogenase/0.454
1v79FR7Adenosine deaminase3.5.4.40.453
2yg5FADPutrescine oxidase/0.453
2zi53L1Deoxycytidine kinase2.7.1.740.453
3fu83DMLaccase-11.10.3.20.453
3ituIBMcGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.453
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.453
4gh6LUOHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
4ocvANPAminoglycoside phosphotransferase/0.453
1ove358Mitogen-activated protein kinase 14/0.452
1rx3MTXDihydrofolate reductase1.5.1.30.452
2b00GCHPhospholipase A2, major isoenzyme3.1.1.40.452
2j3jHC4NADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.452
3g5mFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.452
3jq6DX1Pteridine reductase, putative/0.452
3l9lL9LcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
3sl8JN7cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.452
4ap7F47Hepatocyte growth factor receptor2.7.10.10.452
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.452
4mubOAQSulfotransferase oxamniquine resistance protein/0.452
2qmyFADRibosyldihydronicotinamide dehydrogenase [quinone]/0.451
2v34CTN4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.451
2wsa646Glycylpeptide N-tetradecanoyltransferase/0.451
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.451
3ojxFMNNADPH--cytochrome P450 reductase/0.451
3uxhUXHRibosyldihydronicotinamide dehydrogenase [quinone]/0.451
4fex0TOAminoglycoside 3'-phosphotransferase AphA1-IAB/0.451
4kbn25UDihydrofolate reductase1.5.1.30.451
5c1mCLRMu-type opioid receptor/0.451
1djqFMNTrimethylamine dehydrogenase1.5.8.20.450
1thnADPAnti-sigma F factor/0.450
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.450
3dleGFAGag-Pol polyprotein2.7.7.490.450
3jq3ADPLombricine kinase/0.450
3qfvNM7Serine/threonine-protein kinase MRCK beta2.7.11.10.450
4fgcPQ0NADPH-dependent 7-cyano-7-deazaguanine reductase1.7.1.130.450
4ise1FWGlucokinase2.7.1.20.450
4wo5324Serine/threonine-protein kinase B-raf2.7.11.10.450
1digL37C-1-tetrahydrofolate synthase, cytoplasmic1.5.1.50.449
1e1fPSG4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1, chloroplastic3.2.1.1820.449
2rgxAP5Adenylate kinase/0.449
2vagV25Dual specificity protein kinase CLK12.7.12.10.449
3ddw055Glycogen phosphorylase, liver form2.4.1.10.449
3e7tB14Nitric oxide synthase, inducible1.14.13.390.449
3zknWZVBeta-secretase 23.4.23.450.449
4isuIKMGlutamate receptor 2/0.449
1ja1FMNNADPH--cytochrome P450 reductase/0.448
2azyCHDPhospholipase A2, major isoenzyme3.1.1.40.448
2e8uIPEGeranylgeranyl pyrophosphate synthase/0.448
2fr0NDP6-deoxyerythronolide-B synthase EryA1, modules 1 and 2/0.448
2p1u4TNRetinoic acid receptor RXR-alpha/0.448
2qtaTDPPyruvate dehydrogenase E1 component1.2.4.10.448
2ywvADPPhosphoribosylaminoimidazole-succinocarboxamide synthase/0.448
3cqeP91Wee1-like protein kinase2.7.10.20.448
3rtnRTNBeta-secretase 13.4.23.460.448
4b13X25Glycylpeptide N-tetradecanoyltransferase/0.448
4jshQ15Nitric oxide synthase, brain1.14.13.390.448
4l6s1WQPoly [ADP-ribose] polymerase 12.4.2.300.448
3c1tMYCDihydroflavonol 4-reductase1.1.1.2190.447
4dgo0JWCasein kinase II subunit alpha2.7.11.10.447
4m4821BSodium-dependent dopamine transporter/0.447
5erm210Fusicoccadiene synthase4.2.3.430.447
2bzsCB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.446
2hq9FADMll6688 protein/0.446
2hruADPPhosphoribosylformylglycinamidine synthase subunit PurL/0.446
2j0vGDPRac-like GTP-binding protein ARAC7/0.446
3clrFADElectron transfer flavoprotein subunit alpha/0.446
3ge7AFQQueuine tRNA-ribosyltransferase2.4.2.290.446
3jsuKA5Bifunctional dihydrofolate reductase-thymidylate synthase/0.446
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
4f1mACPProbable serine/threonine-protein kinase roco42.7.11.10.446
4imu1ETNitric oxide synthase, brain1.14.13.390.446
4k37SAMAnaerobic sulfatase-maturating enzyme1.8.980.446
4n3r2GUTankyrase-12.4.2.300.446
5ds309LPoly [ADP-ribose] polymerase 12.4.2.300.446
1j7lADPAminoglycoside 3'-phosphotransferase2.7.1.950.445
1xi2CB1Ribosyldihydronicotinamide dehydrogenase [quinone]/0.445
2gbyBRNHTH-type transcriptional regulator QacR/0.445
2ov2GCPRas-related C3 botulinum toxin substrate 3/0.445
2qmzLDPRibosyldihydronicotinamide dehydrogenase [quinone]/0.445
3eah327Nitric oxide synthase, endothelial1.14.13.390.445
3hmvHBTcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.445
3iakEV1cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
3occDIHPurine nucleoside phosphorylase DeoD-type/0.445
3png8CXNitric oxide synthase, brain1.14.13.390.445
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.445
4a4o664Serine/threonine-protein kinase PLK12.7.11.210.445
5ah5LSSLeucine--tRNA ligase/0.445
3reyXACAdenosine receptor A2a/0.445
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.444
2oalFADFlavin-dependent tryptophan halogenase RebH1.14.19.90.444
2zbaZBATrichothecene 3-O-acetyltransferase/0.444
3n65XFJNitric oxide synthase, brain1.14.13.390.444
3phjDHKShikimate dehydrogenase (NADP(+))/0.444
3zxsFADDeoxyribodipyrimidine photolyase-related protein/0.444
4h3j10WBeta-secretase 13.4.23.460.444
4qtuSAM18S rRNA (guanine(1575)-N(7))-methyltransferase/0.444
7dfrFOLDihydrofolate reductase1.5.1.30.444
1o97FADElectron transfer flavoprotein subunit alpha/0.443
1synF89Thymidylate synthase/0.443
1uhoVDNcGMP-specific 3',5'-cyclic phosphodiesterase/0.443
1uxvNAPNAD(P)-dependent glyceraldehyde-3-phosphate dehydrogenase/0.443
1ve3SAMUncharacterized protein/0.443
1zklIBMHigh affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A3.1.4.530.443
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
2ivnANPtRNA N6-adenosine threonylcarbamoyltransferase/0.443
2v18FMNDodecin/0.443
3nhkVAPRibosyldihydronicotinamide dehydrogenase [quinone]/0.443
3njoPYVAbscisic acid receptor PYR1/0.443
3o56ZG1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.443
3oafOAGDihydrofolate reductase1.5.1.30.443
4gqe6KJNitric oxide synthase, brain1.14.13.390.443
4jpe1M7Beta-secretase 13.4.23.460.443
3qakUKAAdenosine receptor A2a/0.443
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.442
1mvsDTMDihydrofolate reductase1.5.1.30.442
1zzrDP9Nitric oxide synthase, brain1.14.13.390.442
2xlsFADPutative flavin-containing monooxygenase/0.442
2yee2ECHeat shock protein HSP 90-alpha/0.442
3ebf332Nitric oxide synthase, inducible1.14.13.390.442
3hu2AGSTransitional endoplasmic reticulum ATPase3.6.4.60.442
3srwQ27Dihydrofolate reductase1.5.1.30.442
4b144XBGlycylpeptide N-tetradecanoyltransferase/0.442
4biiPYWEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.442
4deg0JJHepatocyte growth factor receptor2.7.10.10.442
4g2wNI0cGMP-specific 3',5'-cyclic phosphodiesterase/0.442
4gcxPRFQueuine tRNA-ribosyltransferase2.4.2.290.442
4qa0SHHHistone deacetylase 83.5.1.980.442
4tv3ML9Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform/0.442
5fbhTCRExtracellular calcium-sensing receptor/0.442
2ycxP32Beta-1 adrenergic receptor/0.442
3uzcT4EAdenosine receptor A2a/0.442
1dajMOTDihydrofolate reductase1.5.1.30.441
1v35NAIEnoyl-ACP reductase/0.441
2c1zKMPAnthocyanidin 3-O-glucosyltransferase 22.4.1.1150.441
2ejzSAHDiphthine synthase/0.441
2gfsPQBMitogen-activated protein kinase 14/0.441
2olcADPMethylthioribose kinase2.7.1.1000.441
2q153MRBeta-secretase 13.4.23.460.441
2wjoQUDBeta-secretase 13.4.23.460.441
3cquCQURAC-alpha serine/threonine-protein kinase2.7.11.10.441
3mcvMCVPteridine reductase/0.441
3nr4PYVAbscisic acid receptor PYL2/0.441
3oadLPORenin3.4.23.150.441
3owxXRARibosyldihydronicotinamide dehydrogenase [quinone]/0.441
3sf6FDAGlutaryl-CoA dehydrogenase/0.441
4at2ASDPossible succinate dehydrogenase/0.441
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.441
4cf7ADPAdenylate kinase/0.441
4fhd0TTSpore photoproduct lyase/0.441
4gr9372Ribosyldihydronicotinamide dehydrogenase [quinone]/0.441
4hqvQEIQueuine tRNA-ribosyltransferase2.4.2.290.441
4ia05BBcGMP-specific 3',5'-cyclic phosphodiesterase/0.441
1qxlFR8Adenosine deaminase3.5.4.40.440
1siqFADGlutaryl-CoA dehydrogenase, mitochondrial1.3.8.60.440
1tsdF89Thymidylate synthase/0.440
1zzqDP9Nitric oxide synthase, brain1.14.13.390.440
2b82ADNClass B acid phosphatase3.1.3.20.440
2g226IGRenin3.4.23.150.440
2jedLG8Protein kinase C theta type2.7.11.130.440
2qjpANJCytochrome b/0.440
2r0cFADPutative FAD-monooxygenase/0.440
3bloQEIQueuine tRNA-ribosyltransferase2.4.2.290.440
3iro2CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.440
3lanKBTGag-Pol polyprotein2.7.7.490.440
3nj0PYVAbscisic acid receptor PYL2/0.440
3tzaTZGGlutamate receptor 2/0.440
3wv9FEGHmd co-occurring protein HcgE/0.440
3ziaADPATP synthase subunit beta, mitochondrial3.6.3.140.440
4eilFOLBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.440
4gh30EVQueuine tRNA-ribosyltransferase2.4.2.290.440
4h3g10QBeta-secretase 13.4.23.460.440
4jsfQJ4Nitric oxide synthase, brain1.14.13.390.440
4n1gCEIObelin/0.440
4n82FMNRibonucleotide reductase (NrdI family protein), putative/0.440
4tx9AMZPhosphoribosyl isomerase A/0.440
4x5fFOLDihydrofolate reductase1.5.1.30.440