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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
1wdtGTPElongation factor G (EF-G-2)

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity
Align
1wdtGTPElongation factor G (EF-G-2)/1.000
2q3fGNPRas-related GTP-binding protein D/0.535
3mjhGTPRas-related protein Rab-5A/0.519
4d0lGSPRas-related protein Rab-11A/0.510
5ftcADPTPR domain protein/0.495
5c46GSPRas-related protein Rab-11A/0.494
4f9fGDPPutative glycosyltransferase/0.491
2ic5GDPRas-related C3 botulinum toxin substrate 3/0.488
4gh5NADShort-chain dehydrogenase/reductase SDR/0.488
4o2rGDPGTP-binding protein Rheb/0.487
4j5rA1RO-acetyl-ADP-ribose deacetylase 13.5.10.485
1rj9GCPSignal recognition particle receptor FtsY/0.484
1zemNADXylitol dehydrogenase/0.483
2rc3NADCBS domain/0.483
4g01GDPRas-related protein RABF2b/0.483
1t0lNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.482
2fg5GNPRas-related protein Rab-31/0.482
1tu3GNPRas-related protein Rab-5A/0.481
4panGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.481
1v8kANPKinesin-like protein KIF2C/0.480
1ky2GNPGTP-binding protein YPT7/0.479
1n6lGTPRas-related protein Rab-5A/0.479
2qbuSAHPrecorrin-2 methyltransferase/0.479
2uzuL20cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.477
1o8cNDPProbable acrylyl-CoA reductase AcuI1.3.1.840.476
2xtnGTPGTPase IMAP family member 2/0.476
2nnlNAPDihydroflavonol 4-reductase1.1.1.2190.474
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.474
4g1z0VPVitamin D3 receptor A/0.474
3t1tGDPProbable gliding protein mglA/0.472
4fidGDPG protein alpha subunit, putative/0.472
2fe4GDPRas-related protein Rab-6B/0.471
3etdNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.471
4g1d0VKVitamin D3 receptor A/0.471
1cs4GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.470
3biy01KHistone acetyltransferase p300/0.470
3qbtGNPRas-related protein Rab-8A/0.470
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.469
2p2lGDPRas-related C3 botulinum toxin substrate 1/0.469
3kkvB99cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.469
4aa5NQBMitogen-activated protein kinase 14/0.467
4iafADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.467
1cx4CMPcAMP-dependent protein kinase type II-beta regulatory subunit/0.466
3nga3NGCasein kinase II subunit alpha2.7.11.10.466
4dbzNDPPutative ketoacyl reductase1.3.10.466
4lucGDPGTPase KRas/0.466
4mq12C3Dual specificity tyrosine-phosphorylation-regulated kinase 1A2.7.12.10.466
2oorNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.465
3iphG11Mitogen-activated protein kinase 14/0.465
4tuvCPZCytochrome P450 1191.140.465
4xnhACON-terminal acetyltransferase A complex subunit NAT52.3.10.465
1jayF42F420-dependent NADP reductase/0.464
1mh1GNPRas-related C3 botulinum toxin substrate 1/0.464
1uu9BI33-phosphoinositide-dependent protein kinase 12.7.11.10.464
3iaeD7KBenzaldehyde lyase/0.464
1q4u4CA4-hydroxybenzoyl-CoA thioesterase3.1.2.230.463
3atrFDAConserved Archaeal protein/0.462
3lqfNADGalactitol dehydrogenase/0.462
3refGDPRho family GTPase/0.462
3s87ADPRibonucleoside-diphosphate reductase large chain 11.17.4.10.462
3wfjNAD2-dehydropantoate 2-reductase/0.462
3jvvACPTwitching mobility protein/0.461
4kwhNAPReductase homolog/0.461
5l3rGCPCell division protein FtsY homolog, chloroplastic/0.461
2c29NAPDihydroflavonol 4-reductase/0.460
2ic5GNPRas-related C3 botulinum toxin substrate 3/0.460
2ww4ADP4-diphosphocytidyl-2-C-methyl-D-erythritol kinase2.7.1.1480.460
3gy0NAPNAD(P)-dependent oxidoreductase/0.460
3o7lANPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.460
3r9xGNPGTPase Era/0.460
3vhxGTPADP-ribosylation factor 6/0.460
4rf2NAPNADPH dependent R-specific alcohol dehydrogenase/0.460
4uj3GNPRas-related protein Rab-11A/0.460
5d3qGDPDynamin-13.6.5.50.460
5di3GNPADP-ribosylation factor-like protein 3/0.460
1aztGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.459
1u7tNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.459
2yvgNADFerredoxin reductase/0.459
3cphGDPRas-related protein SEC4/0.459
4dpwAGSMevalonate diphosphate decarboxylase/0.459
4ia1BIVVitamin D3 receptor A/0.459
4mdhNADMalate dehydrogenase, cytoplasmic1.1.1.370.459
4z5wILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.459
1gilGSPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.458
1w06W05Isopenicillin N synthase1.21.3.10.458
2f7z6EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.458
2givACOHistone acetyltransferase KAT8/0.458
3phiNDPShikimate dehydrogenase (NADP(+))/0.458
3sfeFADSuccinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial/0.458
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.458
4fg7ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.458
4l7f1V5Mitogen-activated protein kinase 82.7.11.240.458
4n3cUD1UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.458
2uzfCAA1,4-dihydroxy-2-naphthoyl-CoA synthase/0.457
3pe2E1BCasein kinase II subunit alpha2.7.11.10.457
5lc1NADL-threonine 3-dehydrogenase/0.457
1adfTADAlcohol dehydrogenase E chain1.1.1.10.456
3q4zANPSerine/threonine-protein kinase PAK 12.7.11.10.456
4gl4NAIAlcohol dehydrogenase class-3/0.456
4xvrGNPGTPase HRas/0.456
1w4zNAPPutative ketoacyl reductase1.3.10.455
2rgoFADAlpha-Glycerophosphate Oxidase/0.455
3k4cFADPyranose 2-oxidase/0.455
2fsvNADNAD(P) transhydrogenase subunit alpha part 11.6.1.20.454
4dfg0JVGag-Pol polyprotein3.4.23.160.454
4gkvNADAlcohol dehydrogenase, propanol-preferring1.1.1.10.454
4gyy12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.454
4h8nNDPNADPH-dependent conjugated polyketone reductase C2/0.454
1e3wNAD3-hydroxyacyl-CoA dehydrogenase type-21.1.1.350.453
1pr9NAPL-xylulose reductase1.1.1.100.453
1ptjSNDNAD(P) transhydrogenase subunit alpha part 11.6.1.20.453
2gvdGSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.453
2v1xADPATP-dependent DNA helicase Q13.6.4.120.453
3bxzADPProtein translocase subunit SecA/0.453
3rv6VAESalicylate synthase/0.453
3tgpGNPGTPase HRas/0.453
3umsGDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.453
3wd9QPCcAMP-specific 3',5'-cyclic phosphodiesterase 4B3.1.4.530.453
4fogC2FThymidylate synthase ThyA/0.453
4iqgNAPShort-chain dehydrogenase/reductase SDR/0.453
4iteTEYVitamin D3 receptor/0.453
4p53NAI2-epi-5-epi-valiolone synthase/0.453
4q03GDPGTPase KRas/0.453
5e8wSTUTGF-beta receptor type-12.7.11.300.453
5l3sGNPSignal recognition particle receptor FtsY/0.453
1uaeUD1UDP-N-acetylglucosamine 1-carboxyvinyltransferase/0.452
1x14NADNAD(P) transhydrogenase subunit alpha1.6.1.20.452
1ybmNAPUncharacterized protein At5g02240/0.452
2c1bCQPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.452
2g0nGDPRas-related C3 botulinum toxin substrate 3/0.452
2vprTDCTetracycline repressor protein class H/0.452
2ztmNADD(-)-3-hydroxybutyrate dehydrogenase/0.452
3pcrGTPADP-ribosylation factor 6/0.452
3qe0GDPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.452
3tjzGNPADP-ribosylation factor 1/0.452
4opgFDAConserved Archaeal protein/0.452
1am4GNPCell division control protein 42 homolog/0.451
1pd9CO4Dihydrofolate reductase1.5.1.30.451
1xkvATPPhosphoenolpyruvate carboxykinase (ATP)/0.451
2q29ACOOxalyl-CoA decarboxylase4.1.1.80.451
3d8bADPFidgetin-like protein 13.6.40.451
3jynNDPQuinone oxidoreductase/0.451
3mt817TGlycogen phosphorylase, muscle form2.4.1.10.451
3sufSUEPolyprotein/0.451
4z61ILE_THR_GLN_TYS_TYSPhytosulfokine receptor 12.7.11.10.451
4z875GPInosine-5'-monophosphate dehydrogenase/0.451
1xe55FEPlasmepsin-23.4.23.390.450
2qfxNDPIsocitrate dehydrogenase [NADP], mitochondrial1.1.1.420.450
2w06FRVCyclin-dependent kinase 22.7.11.220.450
3nxxNDPDihydrofolate reductase1.5.1.30.450
4b5bBBEGlucose-1-phosphate thymidylyltransferase/0.450
4d5gFADCyclohexane-1,2-dione hydrolase3.7.1.110.450
4hbnCMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4/0.450
1kolNADGlutathione-independent formaldehyde dehydrogenase/0.449
1okkGCPSignal recognition particle protein/0.449
1okkGCPSignal recognition particle receptor FtsY/0.449
2bu2ATP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.449
2chz093Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.449
2q2vNADBeta-D-hydroxybutyrate dehydrogenase/0.449
2ql6ADPNicotinamide riboside kinase 1/0.449
2xckMH43-phosphoinositide-dependent protein kinase 12.7.11.10.449
2zb3NDPProstaglandin reductase 21.3.1.480.449
3atyFMNProstaglandin F2a synthase/0.449
3c0i3AMPeripheral plasma membrane protein CASK2.7.11.10.449
3oibFDAPutative acyl-CoA dehydrogenase/0.449
3qrwNDPPutative ketoacyl reductase1.3.10.449
3vt7VDXVitamin D3 receptor/0.449
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.449
4u97STUInterleukin-1 receptor-associated kinase 42.7.11.10.449
5jsfNAD17-beta-hydroxysteroid dehydrogenase 141.1.10.449
1bv9XV6Gag-Pol polyprotein3.4.23.160.448
1fwkADPHomoserine kinase2.7.1.390.448
1g1aNADdTDP-glucose 4,6-dehydratase/0.448
1hetNADAlcohol dehydrogenase E chain1.1.1.10.448
2ddoATPPyridoxine/pyridoxal/pyridoxamine kinase/0.448
2igoFADPyranose 2-oxidase/0.448
2ojj82AMitogen-activated protein kinase 12.7.11.240.448
3aw9NADNAD-dependent epimerase/dehydratase/0.448
3ndrNADPyridoxal 4-dehydrogenase1.1.1.1070.448
3qfaFADThioredoxin reductase 1, cytoplasmic1.8.1.90.448
4aa4QC0Mitogen-activated protein kinase 14/0.448
4dd8BATDisintegrin and metalloproteinase domain-containing protein 83.4.240.448
4dlbNADS-(hydroxymethyl)glutathione dehydrogenase/0.448
4is3NAD3alpha-hydroxy bile acid-CoA-ester 3-dehydrogenase 21.17.98.10.448
4z3dNDPCarbonyl reductase [NADPH] 11.1.1.1840.448
1bxkNADdTDP-glucose 4,6-dehydratase 2/0.447
1ojtFADDihydrolipoyl dehydrogenase/0.447
1z7yAA5Cysteine synthase 12.5.1.470.447
2c27ACOMycothiol acetyltransferase2.3.1.1890.447
2vhxNADAlanine dehydrogenase1.4.1.10.447
2vnaNAPProstaglandin reductase 21.3.1.480.447
2xtzGSPGuanine nucleotide-binding protein alpha-1 subunit/0.447
3c14GSPGuanine nucleotide-binding protein G(s) subunit alpha isoforms short/0.447
3gxlQIGTGF-beta receptor type-12.7.11.300.447
3kjsNAPBifunctional dihydrofolate reductase-thymidylate synthase/0.447
3of4FMNNitroreductase/0.447
3r83Z14Cyclin-dependent kinase 22.7.11.220.447
4c7kNAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.447
4l3l5FIRibosomal protein S6 kinase beta-12.7.11.10.447
5cb3APRO-acetyl-ADP-ribose deacetylase/0.447
5fklTDCTetracycline repressor protein class D/0.447
1cbqRE9Cellular retinoic acid-binding protein 2/0.446
1emdNADMalate dehydrogenase/0.446
1h47C5P2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase4.6.1.120.446
1orrNADCDP-paratose 2-epimerase/0.446
1t2aNDPGDP-mannose 4,6 dehydratase4.2.1.470.446
2ad5ADPCTP synthase/0.446
2cgpCMPcAMP-activated global transcriptional regulator CRP/0.446
2jj2ANPATP synthase subunit beta, mitochondrial3.6.3.140.446
3a5oATPMajor actin/0.446
3b6zCO7Enoyl reductase LovC10.446
3flwFLWMitogen-activated protein kinase 14/0.446
3r374CO4-hydroxybenzoyl-CoA thioesterase3.1.2.230.446
4g1y0VOVitamin D3 receptor A/0.446
4jx1CAHCamphor 5-monooxygenase1.14.15.10.446
4y0vGDPADP-ribosylation factor 1, putative/0.446
5uviZMAAdenosine receptor A2a/0.446
1mvsDTMDihydrofolate reductase1.5.1.30.445
1qm5PLPMaltodextrin phosphorylase2.4.1.10.445
1tj2FADBifunctional protein PutA1.5.5.20.445
1z7eATPBifunctional polymyxin resistance protein ArnA/0.445
2ivpATPtRNA N6-adenosine threonylcarbamoyltransferase/0.445
3e2sFADBifunctional protein PutA1.5.5.20.445
3fskRO6Mitogen-activated protein kinase 14/0.445
3mjeNDPAmphB/0.445
3veu0GOBeta-secretase 13.4.23.460.445
4a2aATPCell division protein FtsA/0.445
4fv7E94Mitogen-activated protein kinase 12.7.11.240.445
4ia3BIVVitamin D3 receptor A/0.445
4px9ADPATP-dependent RNA helicase DDX3X3.6.4.130.445
4qaiFMNNADPH dehydrogenase/0.445
4tvbNADHomospermidine synthase2.5.1.440.445
5a88ADPRiboflavin biosynthesis protein RibF2.7.1.260.445
5dp2NAPCurF/0.445
1honGNHAdenylosuccinate synthetase/0.444
1w7h3IPMitogen-activated protein kinase 14/0.444
2c12FADNitroalkane oxidase1.7.3.10.444
2j3kNAPNADPH-dependent oxidoreductase 2-alkenal reductase1.3.1.740.444
2qo9ANPEphrin type-A receptor 32.7.10.10.444
2wdzNADGalactitol dehydrogenase/0.444
3qlrNDPDihydrofolate reductase1.5.1.30.444
4s34ANPMitogen-activated protein kinase 12.7.11.240.444
1f28UMPThymidylate synthase2.1.1.450.443
1meiMOAInosine-5'-monophosphate dehydrogenase/0.443
1s22ATPActin, alpha skeletal muscle/0.443
1txiTX5Vitamin D3 receptor/0.443
1xtsGTPGTP-binding protein Rheb/0.443
2an9GDPGuanylate kinase2.7.4.80.443
2c0cNAPProstaglandin reductase 310.443
2exmZIPCyclin-dependent kinase 22.7.11.220.443
2q4bNAPUncharacterized protein At5g02240/0.443
2qo5CHDFatty acid-binding protein 10-A, liver basic/0.443
2uzwSS4cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.443
2wyvNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.443
3b20NADGlyceraldehyde-3-phosphate dehydrogenase/0.443
3flyFLYMitogen-activated protein kinase 14/0.443
3ixj586Beta-secretase 13.4.23.460.443
3r4b74TGag-Pol polyprotein/0.443
4dc0NDPPutative ketoacyl reductase1.3.10.443
4dc1NDPPutative ketoacyl reductase1.3.10.443
4ez8DHFThymidylate synthase2.1.1.450.443
4fryNADPutative signal-transduction protein with CBS domains/0.443
1db1VDXVitamin D3 receptor/0.442
1giaGSPGuanine nucleotide-binding protein G(i) subunit alpha-1/0.442
1ie8KH1Vitamin D3 receptor/0.442
1mesDMPGag-Pol polyprotein3.4.23.160.442
1xtrGNPGTP-binding protein Rheb/0.442
3bazNAPHydroxyphenylpyruvate reductase1.1.1.2370.442
3bv2P38Mitogen-activated protein kinase 14/0.442
3r0iC0K1-deoxy-D-xylulose 5-phosphate reductoisomerase1.1.1.2670.442
3sxpNADADP-L-glycero-D-mannoheptose-6-epimerase/0.442
3uylTYDProbable NDP-rhamnosyltransferase/0.442
4xb2NDP319aa long hypothetical homoserine dehydrogenase/0.442
4y8vADPAcyl-CoA synthetase (NDP forming)/0.442
4yaiNAIC alpha-dehydrogenase/0.442
5il1SAMN6-adenosine-methyltransferase 70 kDa subunit/0.442
1kqcFMNOxygen-insensitive NAD(P)H nitroreductase/0.441
1o0sNAINAD-dependent malic enzyme, mitochondrial1.1.1.380.441
1oixGDPRas-related protein Rab-11A/0.441
1qlhNADAlcohol dehydrogenase E chain1.1.1.10.441
1u8vFAD4-hydroxybutyryl-CoA dehydratase/vinylacetyl-CoA-Delta-isomerase/0.441
1w6hTITPlasmepsin-23.4.23.390.441
1xzqFONtRNA modification GTPase MnmE3.6.50.441
1yu9GNPRas-related protein Rab-4A/0.441
2cgu3A3Serine/threonine-protein kinase Chk12.7.11.10.441
2cl6CAGGTPase HRas/0.441
2dgnDOIAdenylosuccinate synthetase isozyme 1/0.441
2exlGDMEndoplasmin/0.441
2gn8NAPUDP-N-acetylglucosamine 4,6-dehydratase (inverting)4.2.1.1150.441
2h2aDNDProbable nicotinate-nucleotide adenylyltransferase/0.441
2hk9NAPShikimate dehydrogenase (NADP(+))/0.441
2xlrFADPutative flavin-containing monooxygenase/0.441
2xy93ESAngiotensin-converting enzyme3.2.10.441
2y3sTIRTamL/0.441
2zgzGNPPlasmid segregation protein ParM/0.441
3ll9ADPIsopentenyl phosphate kinase/0.441
3rhdNAPLactaldehyde dehydrogenase1.2.1.220.441
3sqzCOAPutative hydroxymethylglutaryl-CoA synthase/0.441
3v94WYQPhosphodiesterase/0.441
3wt0ATPCell division protein FtsA/0.441
1z2aGDPRas-related protein Rab-23/0.440
2obyNAPQuinone oxidoreductase PIG310.440
2vo6M05cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.440
3dm6757Beta-secretase 13.4.23.460.440
3fln3FNMitogen-activated protein kinase 14/0.440
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.440
3kkoGNPRas-related protein M-Ras/0.440
3q71AR6Poly [ADP-ribose] polymerase 142.4.2.300.440
3r7wGNPGTP-binding protein GTR2/0.440
4dh60KNBeta-secretase 13.4.23.460.440
4ikeADPAdenylate kinase/0.440
4jk3NADUncharacterized protein/0.440
4ma628EAra h 8 allergen/0.440
4p13FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.440
4rheFMNFlavin prenyltransferase UbiX/0.440
4z43FADFlavin-dependent tryptophan halogenase PrnA1.14.19.90.440