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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
4iomFOLFormate--tetrahydrofolate ligase

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4iomFOLFormate--tetrahydrofolate ligase/1.000
4jjkFOLFormate--tetrahydrofolate ligase/0.711
3k3hBYEHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.503
5dozNDPJamJ/0.498
4e907RGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.497
3csoXNIGenome polyprotein2.7.7.480.490
3u4r08FGenome polyprotein2.7.7.480.490
1c7oPPGHemolysin/0.485
3tyvHI3Genome polyprotein2.7.7.480.484
3k3ePDBHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.483
4mka2AYGenome polyprotein2.7.7.480.481
3l9mL9McAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.480
4a33PS8Glycylpeptide N-tetradecanoyltransferase/0.480
4a959MTGlycylpeptide N-tetradecanoyltransferase/0.480
1nquRDL6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.474
3uph0C1Genome polyprotein2.7.7.480.473
1pqc444Oxysterols receptor LXR-beta/0.472
3dy85GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.471
4g2l0WLHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.471
1thz326Bifunctional purine biosynthesis protein PURH2.1.2.30.470
4qaiFMNNADPH dehydrogenase/0.470
1pq944BOxysterols receptor LXR-beta/0.469
3adaNADSubunit alpha of sarocosine oxidase/0.468
3ska053Genome polyprotein2.7.7.480.468
4g2j0WFHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.467
3dyqPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.466
1nueGDPNucleoside diphosphate kinase B2.7.4.60.465
1z4rACOHistone acetyltransferase KAT2A2.3.1.480.465
2c9dPHR6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.465
3hkyIX6Genome polyprotein2.7.7.480.465
3g45988cAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.464
4c717RD3-oxoacyl-ACP synthase/0.464
1k7fIAVTryptophan synthase alpha chain/0.463
2xltNA0Putative flavin-containing monooxygenase/0.463
3g86T18Genome polyprotein2.7.7.480.463
3ske054Genome polyprotein2.7.7.480.463
3bjcWANcGMP-specific 3',5'-cyclic phosphodiesterase/0.462
3h59H59Genome polyprotein2.7.7.480.462
4b7754MBeta-secretase 13.4.23.460.462
4g2yNI5cGMP-specific 3',5'-cyclic phosphodiesterase/0.462
1uhhCZPAequorin-2/0.461
2giqNN2Genome polyprotein2.7.7.480.461
3gnvXNZGenome polyprotein2.7.7.480.460
4r7uUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.460
1obnASVIsopenicillin N synthase1.21.3.10.459
3u4o08EGenome polyprotein2.7.7.480.459
3k9vCPS1,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrial/0.458
3prfFP3Serine/threonine-protein kinase B-raf2.7.11.10.458
1tbbROLcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.457
3aw9NADNAD-dependent epimerase/dehydratase/0.457
3g58988cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.457
3qi4IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.457
1lwlDSOCamphor 5-monooxygenase1.14.15.10.456
2ed3SAHDiphthine synthase/0.456
2ydoADNAdenosine receptor A2a/0.456
3dys5GPHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.456
3g4gD71cAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.456
3zhtTD9Multifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.456
4qa0SHHHistone deacetylase 83.5.1.980.456
2bjsACVIsopenicillin N synthase1.21.3.10.455
3dysIBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.455
3h2lYAKGenome polyprotein2.7.7.480.455
4a86H35Major pollen allergen Bet v 1-A/0.455
1euyQSIGlutamine--tRNA ligase6.1.1.180.454
1w6jR71Lanosterol synthase5.4.99.70.454
3a25SAMtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase/0.454
3dynPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3jswJARHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.454
3l9nL9NcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.454
3wv9FEGHmd co-occurring protein HcgE/0.454
3zc3FADFerredoxin--NADP reductase1.18.1.20.454
4phlPILPhosphodiesterase/0.454
1ppjANYCytochrome b/0.453
1xddAAYIntegrin alpha-L/0.453
3nhpHGZRibosyldihydronicotinamide dehydrogenase [quinone]/0.453
4c49HCYCorticosteroid-binding globulin/0.453
2z7hGG3Geranylgeranyl pyrophosphate synthase/0.452
3d5m4MSGenome polyprotein2.7.7.480.452
3hkwIX6Genome polyprotein2.7.7.480.452
4b4w9L9Bifunctional protein FolD/0.452
4x7ySAHMycinamicin III 3''-O-methyltransferase2.1.1.2370.452
5d4uSAMUncharacterized protein MJ0489/0.452
2e94364Geranylgeranyl pyrophosphate synthase/0.451
3dylPCGHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.451
4ckrDI1Epithelial discoidin domain-containing receptor 12.7.10.10.451
1hb1OCVIsopenicillin N synthase1.21.3.10.450
1pd9CO4Dihydrofolate reductase1.5.1.30.450
1r5gAO1Methionine aminopeptidase 2/0.450
1ychFMNNitric oxide reductase10.450
2g1r3IGRenin3.4.23.150.450
3zeiAWHO-acetylserine sulfhydrylase/0.450
4ia05BBcGMP-specific 3',5'-cyclic phosphodiesterase/0.450
5irnADPNucleotide binding oligomerization domain containing 2/0.450
1odnAPVIsopenicillin N synthase1.21.3.10.449
1sg0STLRibosyldihydronicotinamide dehydrogenase [quinone]/0.449
2aq7TL53-oxoacyl-[acyl-carrier-protein] synthase 12.3.1.410.449
1swtBTNStreptavidin/0.448
3n39FMNProtein NrdI/0.448
3ojxFADNADPH--cytochrome P450 reductase/0.448
3ox1695Ribosyldihydronicotinamide dehydrogenase [quinone]/0.448
3uyk0CXProbable NDP-rhamnosyltransferase/0.448
4drjRAPSerine/threonine-protein kinase mTOR2.7.11.10.448
4drjRAPPeptidyl-prolyl cis-trans isomerase FKBP45.2.1.80.448
2yoj8Y6Genome polyprotein2.7.7.480.447
3ox34X4Ribosyldihydronicotinamide dehydrogenase [quinone]/0.447
3p6pA6BCamphor 5-monooxygenase1.14.15.10.447
4ajdF04cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.447
4bfxZVXPantothenate kinase2.7.1.330.447
4jln18VDeoxycytidine kinase2.7.1.740.447
4kq6DLZ6,7-dimethyl-8-ribityllumazine synthase/0.447
1mvtDTMDihydrofolate reductase1.5.1.30.446
2jb4A14Isopenicillin N synthase1.21.3.10.446
2qo4CHDFatty acid-binding protein 10-A, liver basic/0.446
2vcmM11Isopenicillin N synthase1.21.3.10.446
2yy2IBMHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
3jsiWTCHigh affinity cGMP-specific 3',5'-cyclic phosphodiesterase 9A/0.446
5h841VUHistone acetyltransferase KAT2A2.3.1.480.446
3p0gP0GBeta-2 adrenergic receptor/0.446
1xonPILcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.445
2vbdV10Isopenicillin N synthase1.21.3.10.445
3g0yP9A3-oxoacyl-[acyl-carrier-protein] synthase 22.3.1.1790.445
3nfrEWQRibosyldihydronicotinamide dehydrogenase [quinone]/0.445
3ppkFNISerine/threonine-protein kinase B-raf2.7.11.10.445
1h69ARHNAD(P)H dehydrogenase [quinone] 11.6.5.20.444
1queFADFerredoxin--NADP reductase1.18.1.20.444
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.444
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.444
4oew5IOcGMP-specific 3',5'-cyclic phosphodiesterase/0.444
1mvsDTMDihydrofolate reductase1.5.1.30.443
1qjfACSIsopenicillin N synthase1.21.3.10.443
1qsnCOAHAT A1/0.443
1ygkRRCPyridoxal kinase2.7.1.350.443
2gfxPMN3-oxoacyl-[acyl-carrier-protein] synthase 22.3.1.1790.443
2jj1ADPATP synthase subunit alpha, mitochondrial/0.443
2jj1ADPATP synthase subunit beta, mitochondrial3.6.3.140.443
4cjx9L9C-1-tetrahydrofolate synthase, cytoplasmic, putative/0.443
4gts7TPGeranylgeranyl transferase type-2 subunit beta2.5.1.600.443
4iaq2GM5-hydroxytryptamine receptor 1B/0.443
4j6dTESCytochrome P450 monooxygenase/0.443
1b2lNDCAlcohol dehydrogenase1.1.1.10.442
1dlrMXADihydrofolate reductase1.5.1.30.442
1iolESTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
1u0hONMAdenylate cyclase type 2/0.442
1u0hONMAdenylate cyclase type 5/0.442
2vbpVB1Isopenicillin N synthase1.21.3.10.442
2w3mFOLDihydrofolate reductase1.5.1.30.442
2yneYNEGlycylpeptide N-tetradecanoyltransferase/0.442
3d3p20AcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.442
3ghvGHCDihydrofolate reductase1.5.1.30.442
3ihgVAKAklavinone 12-hydroxylase RdmE/0.442
3jsxCC2NAD(P)H dehydrogenase [quinone] 11.6.5.20.442
3wavDWVEctonucleotide pyrophosphatase/phosphodiesterase family member 23.1.4.390.442
4amjCVDBeta-1 adrenergic receptor/0.442
4b117I1Glycylpeptide N-tetradecanoyltransferase/0.442
4jlj1NMDeoxycytidine kinase2.7.1.740.442
4jlk1NODeoxycytidine kinase2.7.1.740.442
4l8u9AZSerum albumin/0.442
4pnmNU1Tankyrase-22.4.2.300.442
1r58AO5Methionine aminopeptidase 2/0.441
1s3uTQDDihydrofolate reductase1.5.1.30.441
1x1bSAHC-20 methyltransferase/0.441
1y2bDEEcAMP-specific 3',5'-cyclic phosphodiesterase 4D3.1.4.530.441
2uxoTACHTH-type transcriptional regulator TtgR/0.441
2xkfBX1Serine/threonine-protein kinase Nek22.7.11.10.441
3fpkFADFerredoxin-NADP reductase/0.441
3l3rOAGDihydrofolate reductase1.5.1.30.441
4dya0MFNucleoprotein/0.441
4eaw0NQGenome polyprotein2.7.7.480.441
1ejbINJ6,7-dimethyl-8-ribityllumazine synthase2.5.1.780.440
1thnADPAnti-sigma F factor/0.440
1v5z2HCMajor NAD(P)H-flavin oxidoreductase1.6.990.440
1w06W05Isopenicillin N synthase1.21.3.10.440
1zp4C2F5,10-methylenetetrahydrofolate reductase1.5.1.200.440
2e9aB28Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)2.5.1.310.440
2fb8215Serine/threonine-protein kinase B-raf2.7.11.10.440
2hxzH7JCathepsin S3.4.22.270.440
2r6kGTXGlutathione S-transferase A12.5.1.180.440
2y60M8FIsopenicillin N synthase1.21.3.10.440
3ar6TG1Sarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.440
3lfeZ84Mitogen-activated protein kinase 14/0.440
3vt7VDXVitamin D3 receptor/0.440
3zkyWT4Isopenicillin N synthase1.21.3.10.440
4u8iFDAUDP-galactopyranose mutase/0.440