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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
4affATPNitrogen regulatory protein P-II

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
4affATPNitrogen regulatory protein P-II/1.000
3ta2ATPNitrogen regulatory protein P-II (GlnB-3)/0.595
2yfeYFEPeroxisome proliferator-activated receptor gamma/0.500
5c03AGSNon-receptor tyrosine-protein kinase TYK22.7.10.20.497
3i60E86Mitogen-activated protein kinase 12.7.11.240.496
1ffuFADCarbon monoxide dehydrogenase medium chain/0.488
4a4wYFBPeroxisome proliferator-activated receptor gamma/0.487
4c77N01Phenylacetone monooxygenase1.14.13.920.485
4mk029XBeta-adrenergic receptor kinase 12.7.11.150.485
3nieANPMitogen-activated protein kinase/0.482
3n5bADPNitrogen regulatory protein P-II/0.481
1agnNADAlcohol dehydrogenase class 4 mu/sigma chain1.1.1.10.477
2e20B4PPropionate kinase/0.477
4jazSTLPeroxisome proliferator-activated receptor gamma/0.476
2qoqANPEphrin type-A receptor 32.7.10.10.475
1sxjADPReplication factor C subunit 5/0.472
4h4qFADBiphenyl dioxygenase ferredoxin reductase subunit/0.472
2hq9FADMll6688 protein/0.471
3oq6NAJAlcohol dehydrogenase E chain1.1.1.10.469
4deeADPAurora kinase A2.7.11.10.469
2q6sPLBPeroxisome proliferator-activated receptor gamma/0.468
3gwdNAPCyclohexanone monooxygenase/0.468
4nfsNAJAlcohol dehydrogenase E chain1.1.1.10.468
1a72PADAlcohol dehydrogenase E chain1.1.1.10.467
1tw4CHDFatty acid-binding protein, liver/0.467
3upf0BUPolyprotein/0.467
4a4vYFDPeroxisome proliferator-activated receptor gamma/0.467
2ft9CHDFatty acid-binding protein 2, liver/0.466
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.466
3up5NAP2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.466
1glfADPGlycerol kinase/0.465
2yxuATPPyridoxal kinase2.7.1.350.465
3h0aD30Peroxisome proliferator-activated receptor gamma/0.465
2fsnADPArchaeal actin homolog/0.464
2y9qANPMitogen-activated protein kinase 12.7.11.240.464
2xulATPNitrogen regulatory protein P-II/0.463
4co0ADPNitrogen regulatory protein P-II 1/0.463
4d03NAPPhenylacetone monooxygenase1.14.13.920.463
4h3qANPMitogen-activated protein kinase 12.7.11.240.463
4usjATPNitrogen regulatory protein PII/0.463
1pn3TYDdTDP-epi-vancosaminyltransferase2.4.1.3110.462
3tdvGDPGentamicin resistance protein/0.462
1d7yFADFerredoxin reductase/0.461
3k5uPFQAurora kinase A2.7.11.10.461
3pxvFMNNitroreductase/0.461
4en4ATPPyridoxal kinase2.7.1.350.461
1e3eNAIAlcohol dehydrogenase 41.1.1.10.460
3mhyATPNitrogen regulatory protein P-II 1/0.460
3ogqAB1Pol polyprotein/0.460
3w6uNAP6-phosphogluconate dehydrogenase, NAD-binding protein/0.460
4ma628EAra h 8 allergen/0.460
4zohFADPutative oxidoreductase FAD-binding subunit/0.460
4bewCZASarcoplasmic/endoplasmic reticulum calcium ATPase 13.6.3.80.459
4m10ICDProstaglandin G/H synthase 21.14.99.10.459
3dv3MEKDual specificity mitogen-activated protein kinase kinase 12.7.12.20.458
4a99FADTetX family tetracycline inactivation enzyme/0.458
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.458
2z6dFMNPhototropin-22.7.11.10.457
4c3pACPAurora kinase A2.7.11.10.457
4xumIMNPeroxisome proliferator-activated receptor gamma/0.457
5eg3ACPFibroblast growth factor receptor 2/0.457
5eoxADPType 4 fimbrial biogenesis protein PilM/0.457
1e5qNDPSaccharopine dehydrogenase [NADP(+), L-glutamate-forming]1.5.1.100.456
1f3pNADFerredoxin reductase/0.456
1hckATPCyclin-dependent kinase 22.7.11.220.456
3keuATPPyridoxal kinase2.7.1.350.456
3nf7CIWGag-Pol polyprotein/0.456
3zxtACPDeath-associated protein kinase 12.7.11.10.456
4oznATPAmmonium transporter/0.456
1adfTADAlcohol dehydrogenase E chain1.1.1.10.455
1tz8DESTransthyretin/0.455
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.455
2ix5FADAcyl-coenzyme A oxidase 4, peroxisomal1.3.3.60.455
3i4bZ48Glycogen synthase kinase-3 beta2.7.11.260.455
1m0wANPGlutathione synthetase6.3.2.30.454
2bu8ADP[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial2.7.11.20.454
2cig1DGDihydrofolate reductase1.5.1.30.454
3flsFLSMitogen-activated protein kinase 14/0.454
3lf0ATPNitrogen regulatory protein P-II/0.454
3zlmANPAdenosine monophosphate-protein transferase NmFic2.7.7.n10.454
1ictT44Transthyretin/0.453
1yvfPH7Polyprotein/0.453
2w2lNADD-mandelate dehydrogenase/0.453
2xneASHAurora kinase A2.7.11.10.453
2xrwANPMitogen-activated protein kinase 82.7.11.240.453
3i5zZ48Mitogen-activated protein kinase 12.7.11.240.453
4a6bQG8Gag-Pol polyprotein3.4.23.160.453
4fd2ADPChaperone protein ClpB/0.453
4fg9ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.453
4nifANPMitogen-activated protein kinase 12.7.11.240.453
4pzrCOAHistone acetyltransferase p300/0.453
4xuhSFIPeroxisome proliferator-activated receptor gamma/0.453
1hquHBYGag-Pol polyprotein2.7.7.490.452
1i59ANPChemotaxis protein CheA2.7.13.30.452
1n7hNDPGDP-mannose 4,6 dehydratase 24.2.1.470.452
1qr6NADNAD-dependent malic enzyme, mitochondrial1.1.1.380.452
1t7kBH0Gag-Pol polyprotein3.4.23.160.452
1xq6NAPUncharacterized protein At5g02240/0.452
2hw1ANPKetohexokinase/0.452
2r26CMCCitrate synthase2.3.3.160.452
2rbeNDPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.452
3ekv478Gag-Pol polyprotein3.4.23.160.452
3fhyATPPyridoxal kinase2.7.1.350.452
3lu7IPXSerum albumin/0.452
3zuyTCHTransporter/0.452
4gk2L66Ephrin type-A receptor 32.7.10.10.452
4ig01FGGag-Pol polyprotein2.7.7.490.452
4wbbADPcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.452
1adcPADAlcohol dehydrogenase E chain1.1.1.10.451
1eioGCHGastrotropin/0.451
1ha3MAUElongation factor Tu-A/0.451
3tdwGDPGentamicin resistance protein/0.451
3up4NAP2-oxo-Delta(3)-4,5,5-trimethylcyclopentenylacetyl-CoA monooxygenase1.14.13.1600.451
3wdlATP4-phosphopantoate--beta-alanine ligase6.3.2.360.451
3wleNAD(R)-specific carbonyl reductase/0.451
4j361HRKynurenine 3-monooxygenase/0.451
4jlcSU6Serine/threonine-protein kinase TBK12.7.11.10.451
4ux9ANPMitogen-activated protein kinase 82.7.11.240.451
1eblCOA3-oxoacyl-[acyl-carrier-protein] synthase 3/0.450
1fmlRTLRetinol dehydratase/0.450
1ol6ATPAurora kinase A2.7.11.10.450
1ot7IU5Bile acid receptor/0.450
2bm9SAMCephalosporin hydroxylase CmcI/0.450
2v9jATP5'-AMP-activated protein kinase subunit gamma-1/0.450
2ylrNAPPhenylacetone monooxygenase1.14.13.920.450
3phiNDPShikimate dehydrogenase (NADP(+))/0.450
4a6cQG9Gag-Pol polyprotein3.4.23.160.450
4g7gVFVLanosterol 14-alpha-demethylase/0.450
1ybmNAPUncharacterized protein At5g02240/0.449
2xvdAS6Ephrin type-B receptor 42.7.10.10.449
3dafFEG5,10-methenyltetrahydromethanopterin hydrogenase1.12.98.20.449
3g49NAPCorticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.449
3twoNDPMannitol dehydrogenase/0.449
3vspEK8Peroxisome proliferator-activated receptor gamma/0.449
4p13FADMedium-chain specific acyl-CoA dehydrogenase, mitochondrial1.3.8.70.449
5koiNADEnoyl-[acyl-carrier-protein] reductase [NADH]/0.449
1necFMNOxygen-insensitive NAD(P)H nitroreductase10.448
2pdtFADVivid PAS protein VVD/0.448
3iahNAPPutative oxoacyl-(Acyl carrier protein) reductase/0.448
3t8oATPRhodopsin kinase/0.448
3ttjJBIMitogen-activated protein kinase 102.7.11.240.448
3tz3B36Acetyl-CoA carboxylase/0.448
4dpmCOAMalonyl-CoA reductase1.2.1.750.448
4fv2EK5Mitogen-activated protein kinase 12.7.11.240.448
4xyeNADFormate dehydrogenase/0.448
1lldNADL-lactate dehydrogenase 21.1.1.270.447
2ath3EAPeroxisome proliferator-activated receptor gamma/0.447
2e1zB4PPropionate kinase/0.447
2pc9ATPPhosphoenolpyruvate carboxykinase (ATP)/0.447
2pmdGNPTranslation initiation factor 2 subunit gamma/0.447
3q92XNBKetohexokinase/0.447
3vs0VS0Tyrosine-protein kinase HCK2.7.10.20.447
4fidGDPG protein alpha subunit, putative/0.447
4fmqANPMitogen-activated protein kinase 12.7.11.240.447
4gk4L90Ephrin type-A receptor 32.7.10.10.447
4wriOKAOkadaic acid binding protein 2-alpha/0.447
5iqfGDPBifunctional AAC/APH2.3.10.447
5kgpACOPredicted acetyltransferase/0.447
5kj6NAJAlcohol dehydrogenase E chain1.1.1.10.447
5kjcNAJAlcohol dehydrogenase E chain1.1.1.10.447
1jqiFADShort-chain specific acyl-CoA dehydrogenase, mitochondrial/0.446
1ykfNAPNADP-dependent isopropanol dehydrogenase1.1.1.800.446
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.446
2jn3JN3Fatty acid-binding protein, liver/0.446
2ou5FMNPyridoxamine 5'-phosphate oxidase-related FMN-binding protein/0.446
2qd8065Gag-Pol polyprotein3.4.23.160.446
2uzoC62Cyclin-dependent kinase 22.7.11.220.446
2w1fL0FAurora kinase A2.7.11.10.446
2xgs44PUncharacterized protein/0.446
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.446
3f46I2C5,10-methenyltetrahydromethanopterin hydrogenase1.12.98.20.446
3gnwXNCGenome polyprotein2.7.7.480.446
3juqAJDPhenazine biosynthesis protein A/B/0.446
3oriAGSSerine/threonine protein kinase/0.446
3t9aANPInositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2/0.446
3vglANPGlucokinase/0.446
3w5p4OAVitamin D3 receptor/0.446
1b14NADAlcohol dehydrogenase1.1.1.10.445
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.445
1jnkANPMitogen-activated protein kinase 102.7.11.240.445
1n1eNDEGlycerol-3-phosphate dehydrogenase [NAD(+)], glycosomal1.1.1.80.445
1vl8NAPOxidoreductase, short chain dehydrogenase/reductase family/0.445
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.445
2gu8796cAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.445
2jb4A14Isopenicillin N synthase1.21.3.10.445
2q5g1FAPeroxisome proliferator-activated receptor delta/0.445
2q61SF1Peroxisome proliferator-activated receptor gamma/0.445
2w1eL0EAurora kinase A2.7.11.10.445
2y3rTRKTamL/0.445
3clyACPFibroblast growth factor receptor 2/0.445
4l8u9AZSerum albumin/0.445
4q73FADBifunctional protein PutA/0.445
5cdtNAJAlcohol dehydrogenase E chain1.1.1.10.445
1ipeNDPTropinone reductase 21.1.1.2360.444
1ot7CHCBile acid receptor/0.444
1pmn984Mitogen-activated protein kinase 102.7.11.240.444
2f7z6EAcAMP-dependent protein kinase catalytic subunit alpha2.7.11.110.444
2h8hH8HProto-oncogene tyrosine-protein kinase Src2.7.10.20.444
2i1vADP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 32.7.1.1050.444
2yltNAPPhenylacetone monooxygenase1.14.13.920.444
3zoiM2WIsopenicillin N synthase1.21.3.10.444
4bb432WEphrin type-B receptor 42.7.10.10.444
4ix5ANPUncharacterized protein/0.444
4jboWPHAurora kinase A2.7.11.10.444
4oh4ANPProtein BRASSINOSTEROID INSENSITIVE 12.7.10.10.444
5dozNDPJamJ/0.444
1d4hBEHGag-Pol polyprotein3.4.23.160.443
1g0nNDPTetrahydroxynaphthalene reductase1.1.1.2520.443
1npvL27Gag-Pol polyprotein3.4.23.160.443
1osvCHCBile acid receptor/0.443
1pkfEPDEpothilone C/D epoxidase1.140.443
1t0lNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.443
2j7t274Serine/threonine-protein kinase 102.7.11.10.443
2vx07X7Ephrin type-B receptor 42.7.10.10.443
3eljGS7Mitogen-activated protein kinase 82.7.11.240.443
3eteNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.443
4em9TCEPeroxisome proliferator-activated receptor gamma/0.443
4fsrHKCSerine/threonine-protein kinase Chk12.7.11.10.443
1ewyFADFerredoxin--NADP reductase1.18.1.20.442
1hf3NADAlcohol dehydrogenase E chain1.1.1.10.442
1meuDMPGag-Pol polyprotein3.4.23.160.442
2cjmATPCyclin-dependent kinase 22.7.11.220.442
2gyoCOA3-oxoacyl-[acyl-carrier-protein] synthase 3/0.442
2ojj82AMitogen-activated protein kinase 12.7.11.240.442
3akm11DFatty acid-binding protein, intestinal/0.442
3bgcLJHGag-Pol polyprotein3.4.23.160.442
3e8nVRADual specificity mitogen-activated protein kinase kinase 12.7.12.20.442
3icrCOACoenzyme A disulfide reductase/0.442
3pp1IZGDual specificity mitogen-activated protein kinase kinase 12.7.12.20.442
4bvaT3Ketimine reductase mu-crystallin1.5.1.250.442
4rpgFADUDP-galactopyranose mutase5.4.99.90.442
4xivACPChemotaxis protein CheA2.7.13.30.442
5dnrATPAurora kinase A2.7.11.10.442
5kj1NAJAlcohol dehydrogenase E chain1.1.1.10.442
1qpjSTUTyrosine-protein kinase Lck2.7.10.20.441
2cmvNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.441
2om9AJAPeroxisome proliferator-activated receptor gamma/0.441
2pd7FADVivid PAS protein VVD/0.441
3ajeANPThreonylcarbamoyl-AMP synthase2.7.7.870.441
3b9lAZZSerum albumin/0.441
3i6oGR6Gag-Pol polyprotein3.4.23.160.441
3jskAHZThiamine thiazole synthase/0.441
3oibFDAPutative acyl-CoA dehydrogenase/0.441
3p7nFMNLight-activated DNA-binding protein EL222/0.441
3s2a2NQPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
3t3r9PLCytochrome P450 2A61.14.130.441
4i3zADPCyclin-dependent kinase 22.7.11.220.441
4nmdFDABifunctional protein PutA/0.441
4xd1T3QQdtf/0.441
4xey1N1Tyrosine-protein kinase ABL12.7.10.20.441
5kcpNAJAlcohol dehydrogenase E chain1.1.1.10.441
1glbADPGlycerol kinase/0.440
1h66FADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
1pdhFASp-hydroxybenzoate hydroxylase/0.440
2b9fADPMitogen-activated protein kinase FUS32.7.11.240.440
2qo9ANPEphrin type-A receptor 32.7.10.10.440
2wqeADPAurora kinase A2.7.11.10.440
3d72FADVivid PAS protein VVD/0.440
3p19NDPPutative blue fluorescent protein/0.440
3qa2XNAKetohexokinase/0.440
3qdlFMNOxygen-insensitive NADPH nitroreductase/0.440
4fg8ATPCalcium/calmodulin-dependent protein kinase type 12.7.11.170.440
4lch1WNUDP-3-O-acyl-N-acetylglucosamine deacetylase/0.440
4njsG08Protease/0.440
4o4eATPKinase/0.440
4oxyNADEnoyl-[acyl-carrier-protein] reductase [NADH]1.3.1.90.440
5a4kFADNAD(P)H dehydrogenase [quinone] 11.6.5.20.440
5ajqDB8Serine/threonine-protein kinase 102.7.11.10.440
5cdsNAJAlcohol dehydrogenase E chain1.1.1.10.440