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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
1kflPEPPhospho-2-dehydro-3-deoxyheptonate aldolase, Phe-sensitive2.5.1.54

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1kflPEPPhospho-2-dehydro-3-deoxyheptonate aldolase, Phe-sensitive2.5.1.541.000
3w3dATPActin, gamma-enteric smooth muscle/0.486
1dejATPMajor actin/0.482
3u9dATPActin, alpha skeletal muscle/0.481
4n49MGTCap-specific mRNA (nucleoside-2'-O-)-methyltransferase 12.1.1.570.480
2q36ATPActin, alpha skeletal muscle/0.479
3el2ATPActin-5C/0.479
4k42ADPActin, alpha skeletal muscle/0.479
4pkiATPActin, alpha skeletal muscle/0.475
4ci6ATPActin/0.473
4wbbADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.473
3a5oATPMajor actin/0.471
4ehuANP2-hydroxyisocaproyl-CoA dehydratase activator/0.471
5br7FADUDP-galactopyranose mutase/0.470
1kxpATPActin, alpha skeletal muscle/0.469
2atiIHUGlycogen phosphorylase, liver form2.4.1.10.467
2pv7NADT-protein1.3.1.120.467
1nm1ATPMajor actin/0.466
3a5mATPMajor actin/0.466
1ih8APCNH(3)-dependent NAD(+) synthetase6.3.1.50.465
1t44ATPActin, alpha skeletal muscle/0.465
3gfzFMNUncharacterized protein/0.465
4bebATPType I restriction enzyme EcoR124II R protein3.1.21.30.464
4k43ADPActin, alpha skeletal muscle/0.464
1l3iSAHProbable cobalt-precorrin-6B C(15)-methyltransferase (decarboxylating)/0.463
3cemAVDGlycogen phosphorylase, liver form2.4.1.10.463
4ehtADP2-hydroxyisocaproyl-CoA dehydratase activator/0.463
4pkhADPActin, alpha skeletal muscle/0.462
3ffkATPActin, alpha skeletal muscle/0.461
4yswNAIXanthine dehydrogenase/oxidase/0.461
1g6cIFPThiamine-phosphate synthase/0.460
1rgiATPActin, alpha skeletal muscle/0.460
2bx8AZQSerum albumin/0.460
3junAJDPhenazine biosynthesis protein A/B/0.460
3kdjA8SAbscisic acid receptor PYL1/0.460
4cbxATPActin-2/0.460
4zasTYDCalS13/0.460
5ce3ATPActin/0.460
1i58ACPChemotaxis protein CheA2.7.13.30.459
1pf9ADP60 kDa chaperonin/0.459
3dawATPActin, alpha skeletal muscle/0.459
1h1q2A6Cyclin-dependent kinase 22.7.11.220.458
4m63ATPActin-5C/0.458
4nt03DUOrotidine 5'-phosphate decarboxylase4.1.1.230.458
3nnuEDBMitogen-activated protein kinase 14/0.457
3uwqU5POrotidine 5'-phosphate decarboxylase/0.457
4aqkADPInositol-pentakisphosphate 2-kinase2.7.1.1580.457
1mezGDPAdenylosuccinate synthetase isozyme 1/0.456
1bdbNADCis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase/0.455
2v51ATPActin, alpha skeletal muscle/0.455
3m1fATPActin, alpha skeletal muscle/0.455
4b4dFADFerredoxin-NADP reductase/0.455
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.455
1h1vATPActin, alpha skeletal muscle/0.454
1qxoFMNChorismate synthase/0.454
2xanANPInositol-pentakisphosphate 2-kinase2.7.1.1580.454
3mn7ATPActin-5C/0.454
3qn1A8SAbscisic acid receptor PYR1/0.454
4ku3MYA3-oxoacyl-[ACP] synthase III/0.454
4z69DIFSerum albumin/0.454
5dbyNPSSerum albumin/0.454
1c0fATPMajor actin/0.453
1iwiCAMCamphor 5-monooxygenase1.14.15.10.453
2c4g514Cyclin-dependent kinase 22.7.11.220.453
3sptUD1Bifunctional protein GlmU/0.453
4lg5A1OAbscisic acid receptor PYL2/0.453
1ee0CAA2-pyrone synthase/0.452
1hk2T44Serum albumin/0.452
1mduATPActin, alpha skeletal muscle/0.452
1svmATPLarge T antigen3.6.40.452
3gcvSS6Mitogen-activated protein kinase 14/0.452
3oquA8SAbscisic acid receptor PYL9/0.452
2izrBRKCasein kinase I isoform gamma-32.7.11.10.451
2vcmM11Isopenicillin N synthase1.21.3.10.451
4c9oCAMCytochrome P450/0.451
4la7A1OAbscisic acid receptor PYL2/0.451
3crlANP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.450
3n8nN883-dehydroquinate dehydratase4.2.1.100.450
1lp6C5POrotidine 5'-phosphate decarboxylase4.1.1.230.449
2wo7ASVIsopenicillin N synthase1.21.3.10.449
4i3p1CW3-hydroxyanthranilate 3,4-dioxygenase/0.449
2q97ATPActin, alpha skeletal muscle/0.448
3cjtSAHRibosomal protein L11 methyltransferase2.1.10.448
3fgoCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.448
3n6mGTPGenome polyprotein/0.448
4cdgADPBloom syndrome protein3.6.4.120.447
4ubsDIFPentalenic acid synthase1.14.15.110.447
5fknTDCTetracycline repressor protein class D/0.447
1tezHDFDeoxyribodipyrimidine photo-lyase4.1.99.30.446
2w06FRVCyclin-dependent kinase 22.7.11.220.446
3eqlMXPDNA-directed RNA polymerase subunit beta/0.446
3eqlMXPDNA-directed RNA polymerase subunit beta'/0.446
3m6gATPActin, alpha skeletal muscle/0.446
4tnbSGVG protein-coupled receptor kinase 52.7.11.160.446
1ruoCMPcAMP-activated global transcriptional regulator CRP/0.445
1u3dFADCryptochrome-1/0.445
2cvwGDPRibonucleoside-diphosphate reductase large chain 11.17.4.10.445
1f9aATPNicotinamide-nucleotide adenylyltransferase/0.444
1q19SSCCarbapenam-3-carboxylate synthase6.3.3.60.444
1v59FADDihydrolipoyl dehydrogenase, mitochondrial1.8.1.40.444
2bxaC1FSerum albumin/0.444
2gejGDDPhosphatidyl-myo-inositol mannosyltransferase2.4.1.570.444
3npcB96Mitogen-activated protein kinase 92.7.11.240.444
3tu5ATPActin, alpha skeletal muscle/0.444
4hh0FMNAppA protein/0.444
4j6i1JVPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.444
4jhdANPActin-5C/0.444
5f1xATP78 kDa glucose-regulated protein/0.444
1a9xADPCarbamoyl-phosphate synthase large chain/0.443
1blzACVIsopenicillin N synthase1.21.3.10.443
1gx1CDP2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase4.6.1.120.443
1lcoPPYCytochrome b2, mitochondrial1.1.2.30.443
1pxxDIFProstaglandin G/H synthase 21.14.99.10.443
2eauCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.443
2g2hP16Tyrosine-protein kinase ABL12.7.10.20.443
3fmjFMJMitogen-activated protein kinase 14/0.443
3tm5SFGUncharacterized protein/0.443
5cyqT27Gag-Pol polyprotein2.7.7.490.443
1qhsCLMChloramphenicol 3-O phosphotransferase2.7.10.442
3ka7FADPutative oxidoreductase/0.442
4l8u9AZSerum albumin/0.442
1qjfACSIsopenicillin N synthase1.21.3.10.441
3drrR8EGag-Pol polyprotein2.7.7.490.441
3ekuATPActin-5C/0.441
3h03UBPGlutamate receptor 2/0.441
3qarQARPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
3w5tLHPVitamin D3 receptor/0.441
4bewCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.441
4k41ATPActin, alpha skeletal muscle/0.441
1cbsREACellular retinoic acid-binding protein 2/0.440
1ir3ANPInsulin receptor2.7.10.10.440
1qiqACCIsopenicillin N synthase1.21.3.10.440
1w06W05Isopenicillin N synthase1.21.3.10.440
1y5xE89Queuine tRNA-ribosyltransferase2.4.2.290.440
2bunFADAppA protein/0.440
2bxiAZQSerum albumin/0.440
2iyiFMNAppA, antirepressor of ppsR, sensor of blue light/0.440
2r4fRIE3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.340.440
2wouZZFTGF-beta receptor type-12.7.11.300.440
3r6pA8SAbscisic acid receptor PYL10/0.440
4h1m0YJProtein-tyrosine kinase 2-beta2.7.10.20.440