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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1u3gTHF5-formyltetrahydrofolate cyclo-ligase6.3.3.2

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity
Align
1u3gTHF5-formyltetrahydrofolate cyclo-ligase6.3.3.21.000
5cc9DDFDihydrofolate reductase1.5.1.30.505
1pd9CO4Dihydrofolate reductase1.5.1.30.498
1s3uTQDDihydrofolate reductase1.5.1.30.491
2w3bNDPDihydrofolate reductase1.5.1.30.491
1s3vTQDDihydrofolate reductase1.5.1.30.489
4m6l21VDihydrofolate reductase1.5.1.30.489
3s3vTOPDihydrofolate reductase1.5.1.30.481
4dbw511Aldo-keto reductase family 1 member C3/0.481
1dr3TAPDihydrofolate reductase1.5.1.30.480
2w3mFOLDihydrofolate reductase1.5.1.30.480
1drfFOLDihydrofolate reductase1.5.1.30.479
2wnbC5PCMP-N-acetylneuraminate-beta-galactosamide-alpha-2,3-sialyltransferase 12.4.99.40.479
3aivHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase, chloroplastic3.2.1.1820.479
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.479
1y2c3DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.478
4kp61S1cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.478
2blaCP6Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.476
1xorZARcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.475
1mabADPATP synthase subunit beta, mitochondrial3.6.3.140.472
4jq3ZOMAldo-keto reductase family 1 member C2/0.472
2fm5M99cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.470
3l3rOAGDihydrofolate reductase1.5.1.30.470
3ntz3TZDihydrofolate reductase1.5.1.30.470
1o6qR17Squalene--hopene cyclase4.2.1.1290.469
3k4s0MOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.469
3n0hTOPDihydrofolate reductase1.5.1.30.469
4kko1REGag-Pol polyprotein2.7.7.490.469
1xomCIOcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.468
1dr5NAPDihydrofolate reductase1.5.1.30.467
3nxoD2BDihydrofolate reductase1.5.1.30.467
4bbxLKFcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.467
4fcb0T7cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.467
1mvtDTMDihydrofolate reductase1.5.1.30.466
2dhfDZFDihydrofolate reductase1.5.1.30.466
2poqISDTrans-1,2-dihydrobenzene-1,2-diol dehydrogenase1.3.1.200.466
3sni546cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.466
4c1iEH9cGMP-dependent 3',5'-cyclic phosphodiesterase3.1.4.170.466
4kd79DRDihydrofolate reductase1.5.1.30.466
4oew5IOcGMP-specific 3',5'-cyclic phosphodiesterase/0.466
1kmvLIIDihydrofolate reductase1.5.1.30.465
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.465
1hfqMOTDihydrofolate reductase1.5.1.30.464
1pq6965Oxysterols receptor LXR-beta/0.464
2v2zCDM4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.464
4i6f1C7Serine/threonine-protein kinase PLK22.7.11.210.464
2bu9HFVIsopenicillin N synthase1.21.3.10.463
2fzjDH3Dihydrofolate reductase1.5.1.30.463
1dhfFOLDihydrofolate reductase1.5.1.30.462
1ro6ROLcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.462
2xtbKRMAdenosine kinase, putative/0.462
5ansRX87,8-dihydro-8-oxoguanine triphosphatase3.6.1.550.462
3ghvGHCDihydrofolate reductase1.5.1.30.460
4boeCLRJapanin/0.460
4kfj1R0Dihydrofolate reductase1.5.1.30.460
1dr3HBIDihydrofolate reductase1.5.1.30.459
2wqoVGKSerine/threonine-protein kinase Nek22.7.11.10.459
3g4kROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.459
3k47D09Dihydrofolate reductase1.5.1.30.459
4lm4JPZcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.459
1hb1OCVIsopenicillin N synthase1.21.3.10.458
2xnpWCXSerine/threonine-protein kinase Nek22.7.11.10.458
3aosJH2Hemolymph juvenile hormone binding protein/0.458
3zkyWT4Isopenicillin N synthase1.21.3.10.458
4kak06UDihydrofolate reductase1.5.1.30.458
1hnvTBOGag-Pol polyprotein2.7.7.490.457
2i8cADPD-alanine--D-alanine ligase/0.457
2ovyPFJcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.457
1oj4CDM4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.456
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.456
3d84NDPDihydrofolate reductase1.5.1.30.456
1rxjBNIStreptavidin/0.455
2qx7NAPEugenol synthase 11.1.1.3180.455
2vcmM11Isopenicillin N synthase1.21.3.10.455
3nxrD2DDihydrofolate reductase1.5.1.30.455
3oafOAGDihydrofolate reductase1.5.1.30.455
3t4hMD5Alpha-ketoglutarate-dependent dioxygenase AlkB1.14.11.330.455
4heu15JcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.455
4llkMEWcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.455
4zs4ATPMyosin heavy chain kinase A2.7.11.70.455
4zzjCNANAD-dependent protein deacetylase sirtuin-13.5.10.455
5e9eANPMyosin heavy chain kinase A2.7.11.70.455
3hxeBD8Geranylgeranyl transferase type-2 subunit beta2.5.1.600.454
3itzP66Mitogen-activated protein kinase 14/0.454
3ollESTEstrogen receptor beta/0.454
4kbn25UDihydrofolate reductase1.5.1.30.454
4zhiADPKinesin-like protein KIF11/0.454
1t7o152Carnitine O-acetyltransferase2.3.1.70.453
2ipjFFAAldo-keto reductase family 1 member C2/0.453
2w3aTOPDihydrofolate reductase1.5.1.30.453
2y60M8FIsopenicillin N synthase1.21.3.10.453
3nj0PYVAbscisic acid receptor PYL2/0.453
3nxvD2FDihydrofolate reductase1.5.1.30.453
4fcd0T6cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.453
1ao8MTXDihydrofolate reductase1.5.1.30.452
1blzACVIsopenicillin N synthase1.21.3.10.452
1yciNDFHypoxia-inducible factor 1-alpha inhibitor1.14.11.300.452
3ar5TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.452
3p0fBAUUridine phosphorylase 22.4.2.30.452
4el9AFERibosomal protein S6 kinase alpha-32.7.11.10.452
4kebFOLDihydrofolate reductase1.5.1.30.452
1afsTES3-alpha-hydroxysteroid dehydrogenase1.1.1.500.451
1bk0ACVIsopenicillin N synthase1.21.3.10.451
1tl3H20Gag-Pol polyprotein2.7.7.490.451
1lkeDOGBilin-binding protein/0.450
2o8h227cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
2pklDHTAndrogen receptor/0.450
2vbpVB1Isopenicillin N synthase1.21.3.10.450
2y6fM9FIsopenicillin N synthase1.21.3.10.450
3aiqHBO4-hydroxy-7-methoxy-3-oxo-3,4-dihydro-2H-1,4-benzoxazin-2-yl glucoside beta-D-glucosidase 1b, chloroplastic3.2.1.1820.450
3s7a684Dihydrofolate reductase1.5.1.30.450
4ajfF03cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.450
1hfrMOTDihydrofolate reductase1.5.1.30.449
1q13TESProstaglandin-E(2) 9-reductase1.1.1.1890.449
1sd2MTHS-methyl-5'-thioadenosine phosphorylase/0.449
1synF89Thymidylate synthase/0.449
1tojHCIAspartate aminotransferase2.6.1.10.449
2jb4A14Isopenicillin N synthase1.21.3.10.449
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.449
3mesPT3Putative choline kinase/0.449
3rj0BLDProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.449
3tvxPNXcAMP-specific 3',5'-cyclic phosphodiesterase 4A3.1.4.530.449
3uicNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
4g8cC6LAlpha/beta hydrolase fold protein/0.449
1diuBDMDihydrofolate reductase1.5.1.30.448
1ohjCOPDihydrofolate reductase1.5.1.30.448
1rkpIBMcGMP-specific 3',5'-cyclic phosphodiesterase/0.448
1zklIBMHigh affinity cAMP-specific 3',5'-cyclic phosphodiesterase 7A3.1.4.530.448
2ovvPFHcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.448
3c15FOKAdenylate cyclase type 2/0.448
3c15FOKAdenylate cyclase type 5/0.448
3njoPYVAbscisic acid receptor PYR1/0.448
3qj0QI3Botulinum neurotoxin type A3.4.24.690.448
1az1ALRAldose reductase1.1.1.210.447
1dpmEBPParathion hydrolase3.1.8.10.447
1toiHCIAspartate aminotransferase2.6.1.10.447
1y2d4DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.447
2ouyCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
3ghwGHWDihydrofolate reductase1.5.1.30.447
3r8hZOMAldo-keto reductase family 1 member C3/0.447
3rs0GNPGTPase HRas/0.447
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.447
4dbs0HVAldo-keto reductase family 1 member C3/0.447
4jhiEMUNodulin-13/0.447
4jv81M1Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.447
5stdUNNScytalone dehydratase4.2.1.940.447
1mvsDTMDihydrofolate reductase1.5.1.30.446
1xduSFGAclacinomycin 10-hydroxylase RdmB4.1.10.446
2ourCMPcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.446
2xkdT3MSerine/threonine-protein kinase Nek22.7.11.10.446
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.446
1isgAGSADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 23.2.2.60.445
1oynROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
1tl1H18Gag-Pol polyprotein2.7.7.490.445
1wxjIPLTryptophan synthase alpha chain/0.445
1zknIBMcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
2b1z17MEstrogen receptor/0.445
2qw8NAPEugenol synthase 11.1.1.3180.445
2v2zADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.445
2v8pCDP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.445
3iktNADRedox-sensing transcriptional repressor Rex/0.445
3irn1CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.445
3iro2CYBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.445
4i6h1C8Serine/threonine-protein kinase PLK22.7.11.210.445
4myq19TcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.445
1osvCHCBile acid receptor/0.444
1xoqROFcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
2blbCP7Bifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.444
2fm0M98cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.444
2iviACWIsopenicillin N synthase1.21.3.10.444
3d73NBBPheromone-binding protein ASP1/0.444
3l034OHEstrogen receptor/0.444
1ejiTHFSerine hydroxymethyltransferase, cytosolic/0.443
1kmsLIHDihydrofolate reductase1.5.1.30.443
1p8dCO1Oxysterols receptor LXR-beta/0.443
1touB1VFatty acid-binding protein, adipocyte/0.443
1uwhBAXSerine/threonine-protein kinase B-raf2.7.11.10.443
2fziDH3Dihydrofolate reductase1.5.1.30.443
2gjlFMNNitronate monooxygenase1.13.12.160.443
2pivDHTAndrogen receptor/0.443
3c3eFO12-phospho-L-lactate transferase/0.443
3c4hDRLPoly [ADP-ribose] polymerase 32.4.2.300.443
3i53SAH2,7-dihydroxy-5-methyl-1-naphthoate 7-O-methyltransferase/0.443
4g95OAGDihydrofolate reductase1.5.1.30.443
4hf415HcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.443
4i5xFLFAldo-keto reductase family 1 member B101.1.10.443
4li61XOTankyrase-12.4.2.300.443
1aoeGW3Dihydrofolate reductase1.5.1.30.442
1c1c612Gag-Pol polyprotein2.7.7.490.442
1klkPMDDihydrofolate reductase1.5.1.30.442
1q9mROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.442
1zgcA2EAcetylcholinesterase3.1.1.70.442
3lakKR1Gag-Pol polyprotein2.7.7.490.442
3nxxNDPDihydrofolate reductase1.5.1.30.442
3o57ZG2cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.442
3zoiM2WIsopenicillin N synthase1.21.3.10.442
4eplJAIJasmonic acid-amido synthetase JAR16.3.20.442
1d6w00RProthrombin3.4.21.50.441
1dr2TAPDihydrofolate reductase1.5.1.30.441
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.441
1y2k7DEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
1z6tADPApoptotic protease-activating factor 1/0.441
2ban357Gag-Pol polyprotein2.7.7.490.441
2weyEV1cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.441
3h4vDVPPteridine reductase 11.5.1.330.441
3n0yAPCAdenylate cyclase 2/0.441
3nxtD2EDihydrofolate reductase1.5.1.30.441
3nxyD2HDihydrofolate reductase1.5.1.30.441
4itxIN5Cystathionine beta-lyase MetC4.4.1.80.441
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.440
1gnwGTXGlutathione S-transferase F22.5.1.180.440
1qjfACSIsopenicillin N synthase1.21.3.10.440
1rp4FADEndoplasmic oxidoreductin-11.8.40.440
2nnqT4BFatty acid-binding protein, adipocyte/0.440
2puiADPMethylthioribose kinase2.7.1.1000.440
2v34CTN4-diphosphocytidyl-2-C-methyl-D-erythritol kinase/0.440
3eigMTXDihydrofolate reductase1.5.1.30.440
3l3lL3LPoly [ADP-ribose] polymerase 12.4.2.300.440
3um5CP6Bifunctional dihydrofolate reductase-thymidylate synthase/0.440
3vg9ZMAAdenosine receptor A2a/0.440
4bbhYBNGlycylpeptide N-tetradecanoyltransferase/0.440
4g1nNZTPyruvate kinase PKM2.7.1.400.440
5k2cZMAAdenosine receptor A2a/0.440