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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
1lv89PPPurine nucleoside phosphorylase2.4.2.1

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1lv89PPPurine nucleoside phosphorylase2.4.2.11.000
1lvu9PPPurine nucleoside phosphorylase2.4.2.10.659
3ggs2FDPurine nucleoside phosphorylase2.4.2.10.599
1v3q2DIPurine nucleoside phosphorylase2.4.2.10.577
1pwyAC2Purine nucleoside phosphorylase2.4.2.10.556
1rfgGMPPurine nucleoside phosphorylase2.4.2.10.547
1v48HA1Purine nucleoside phosphorylase2.4.2.10.537
2a0xDIHPurine nucleoside phosphorylase2.4.2.10.533
2a0wDIHPurine nucleoside phosphorylase2.4.2.10.523
1rr6IMHPurine nucleoside phosphorylase2.4.2.10.519
2a0yDIHPurine nucleoside phosphorylase2.4.2.10.510
1rt9IMHPurine nucleoside phosphorylase2.4.2.10.506
2il2LIXRenin3.4.23.150.501
1rszDIHPurine nucleoside phosphorylase2.4.2.10.494
1jqdSAHHistamine N-methyltransferase2.1.1.80.491
4bfxZVXPantothenate kinase2.7.1.330.491
1bk0ACVIsopenicillin N synthase1.21.3.10.481
2rlcCHDCholoylglycine hydrolase3.5.1.240.481
3k8q22APurine nucleoside phosphorylase2.4.2.10.481
1c3x8IGPurine nucleoside phosphorylase2.4.2.10.480
1fxuGU7Purine nucleoside phosphorylase2.4.2.10.480
2on6IMHPurine nucleoside phosphorylase2.4.2.10.480
1mvtDTMDihydrofolate reductase1.5.1.30.479
4bb3KKAIsopenicillin N synthase1.21.3.10.479
4uy6SAHHistidine N-alpha-methyltransferase/0.476
1p0pBCHCholinesterase3.1.1.80.473
3k8o229Purine nucleoside phosphorylase2.4.2.10.473
2iviACWIsopenicillin N synthase1.21.3.10.472
3zkyWT4Isopenicillin N synthase1.21.3.10.472
1hb3SCVIsopenicillin N synthase1.21.3.10.470
4afeGGYSerine/threonine-protein kinase Nek22.7.11.10.470
2aotSAHHistamine N-methyltransferase2.1.1.80.469
4l5aTBNS-methyl-5'-thioadenosine phosphorylase/0.469
2fhjH4ZFormylmethanofuran--tetrahydromethanopterin formyltransferase2.3.1.1010.467
2jb4A14Isopenicillin N synthase1.21.3.10.467
4bfuZVUPantothenate kinase2.7.1.330.465
2g247IGRenin3.4.23.150.464
2vbpVB1Isopenicillin N synthase1.21.3.10.464
3uaxNOSPurine nucleoside phosphorylase DeoD-type/0.462
1hb1OCVIsopenicillin N synthase1.21.3.10.461
1kyxCRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.461
1qtiGNTAcetylcholinesterase3.1.1.70.461
1ry0PG2Aldo-keto reductase family 1 member C3/0.461
3em0CHDFatty acid-binding protein 6, ileal (gastrotropin)/0.461
4zzjCNANAD-dependent protein deacetylase sirtuin-13.5.10.461
1a9p9DIPurine nucleoside phosphorylase2.4.2.10.460
1pf7IMHPurine nucleoside phosphorylase2.4.2.10.460
1bim0QBRenin3.4.23.150.459
2cekN8TAcetylcholinesterase3.1.1.70.459
2g1r3IGRenin3.4.23.150.459
1u65CP0Acetylcholinesterase3.1.1.70.458
3iexGMPPurine nucleoside phosphorylase/0.458
3zoiM2WIsopenicillin N synthase1.21.3.10.458
4mleVO1Glucokinase2.7.1.20.458
4mrm2BYGamma-aminobutyric acid type B receptor subunit 1/0.458
3eksCY9Actin-5C/0.457
3q9bB3NAcetylpolyamine amidohydrolase/0.457
2a57CRM6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.456
2p4sDIHAGAP005945-PA/0.456
3clrFADElectron transfer flavoprotein subunit alpha/0.456
1tl7FOKAdenylate cyclase type 2/0.455
1tl7FOKAdenylate cyclase type 5/0.455
3fhxPXLPyridoxal kinase2.7.1.350.455
1w4lGL8Acetylcholinesterase3.1.1.70.454
2pncCLUPrimary amine oxidase, liver isozyme/0.454
2vcmM11Isopenicillin N synthase1.21.3.10.454
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.453
3w8wFADPutative FAD-dependent oxygenase EncM/0.453
1oc1ASVIsopenicillin N synthase1.21.3.10.452
1pd9CO4Dihydrofolate reductase1.5.1.30.452
3zeiAWHO-acetylserine sulfhydrylase/0.452
4earIM5Purine nucleoside phosphorylase2.4.2.10.452
1ex75GPGuanylate kinase2.7.4.80.451
1gj5130Prothrombin3.4.21.50.451
1gt5BZQOdorant-binding protein/0.451
1h22E10Acetylcholinesterase3.1.1.70.451
1o97FADElectron transfer flavoprotein subunit alpha/0.451
2idkC2FGlycine N-methyltransferase2.1.1.200.451
2oc4IMHPurine nucleoside phosphorylase2.4.2.10.451
4gv4MEJPoly [ADP-ribose] polymerase 32.4.2.300.451
1w6rGNTAcetylcholinesterase3.1.1.70.450
2vbdV10Isopenicillin N synthase1.21.3.10.450
2x86ADPADP-L-glycero-D-manno-heptose-6-epimerase/0.450
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.450
1gky5GPGuanylate kinase2.7.4.80.449
3v2uATPProtein GAL3/0.449
4esoNAPPutative oxidoreductase/0.449
4kbyC2EStimulator of interferon genes protein/0.449
1pq944BOxysterols receptor LXR-beta/0.448
1qiqACCIsopenicillin N synthase1.21.3.10.448
2g1n1IGRenin3.4.23.150.448
2i4qUA4Renin3.4.23.150.448
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.448
3k1wBFXRenin3.4.23.150.448
4b1e6T6Beta-secretase 13.4.23.460.448
4mr72BVGamma-aminobutyric acid type B receptor subunit 1/0.448
2a2xNA9Prothrombin3.4.21.50.447
3arvSAUChitinase A/0.447
3pn1IVHDNA ligase/0.447
5e5h0T1Succinyl-CoA:acetate CoA-transferase/0.447
2a59LMZ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.446
2gs9SAHUncharacterized protein/0.446
4a4xJUPSerine/threonine-protein kinase Nek22.7.11.10.446
4b6uM7GEukaryotic translation initiation factor 4E type 3/0.446
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.446
4zm6ACON-acetyl-beta-D glucosaminidase/0.446
5dp2NAPCurF/0.446
1drfFOLDihydrofolate reductase1.5.1.30.445
1fapRAPPeptidyl-prolyl cis-trans isomerase FKBP1A5.2.1.80.445
1fapRAPSerine/threonine-protein kinase mTOR2.7.11.10.445
2dhfDZFDihydrofolate reductase1.5.1.30.445
3b9oFMNAlkane monoxygenase/0.445
3f8wADNPurine nucleoside phosphorylase/0.445
1eveE20Acetylcholinesterase3.1.1.70.444
1xm1GAHProthrombin3.4.21.50.444
3uayADNPurine nucleoside phosphorylase DeoD-type/0.444
4a87NARMajor pollen allergen Bet v 1-A/0.444
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.444
1b2lNDCAlcohol dehydrogenase1.1.1.10.443
1ps9MDE2,4-dienoyl-CoA reductase1.3.1.340.443
1thz326Bifunctional purine biosynthesis protein PURH2.1.2.30.443
1v2hGUNPurine nucleoside phosphorylase2.4.2.10.443
2dxdANPNucleoside diphosphate kinase2.7.4.60.443
2ha6SCKAcetylcholinesterase3.1.1.70.443
2v0iUD1Bifunctional protein GlmU/0.443
3uzwNAP3-oxo-5-beta-steroid 4-dehydrogenase/0.443
4e2yJHZMethyltransferase/0.443
4rlh0WEEnoyl-[acyl-carrier-protein] reductase [NADH]/0.443
1dx6GNTAcetylcholinesterase3.1.1.70.442
2o6hINI6,7-dimethyl-8-ribityllumazine synthase 12.5.1.780.442
2yimMC4Probable alpha-methylacyl-CoA racemase Mcr (2-methylacyl-CoA racemase) (2-arylpropionyl-CoA epimerase )/0.442
3ekuCY9Actin-5C/0.442
3vsxR32Renin3.4.23.150.442
3x2fNAIAdenosylhomocysteinase/0.442
3zhoFMNNAD(P)H dehydrogenase (quinone)/0.442
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.441
1o2g696Prothrombin3.4.21.50.441
1q0rAKTAclacinomycin methylesterase RdmC3.1.1.950.441
1yryMSGPurine nucleoside phosphorylase2.4.2.10.441
1zgbA1EAcetylcholinesterase3.1.1.70.441
2xupTZ5Acetylcholinesterase3.1.1.70.441
4da6GA2Purine nucleoside phosphorylase DeoD-type2.4.2.10.441
4dpdDHFBifunctional dihydrofolate reductase-thymidylate synthase/0.441
4yfy0FXVioF/0.441
1xdsDRAAclacinomycin 10-hydroxylase RdmB4.1.10.440
1ypeUIPProthrombin3.4.21.50.440
2e0nSAHPrecorrin-2 C20-methyltransferase/0.440
2ikuLIYRenin3.4.23.150.440
2xnpWCXSerine/threonine-protein kinase Nek22.7.11.10.440
2y6fM9FIsopenicillin N synthase1.21.3.10.440
3h2sNDPPutative NADH-flavin reductase/0.440
3tfyCOAN-alpha-acetyltransferase 502.3.10.440