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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
3cf0ADPTransitional endoplasmic reticulum ATPase3.6.4.6

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3cf0ADPTransitional endoplasmic reticulum ATPase3.6.4.61.000
2qo9ANPEphrin type-A receptor 32.7.10.10.515
1e8zSTUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.498
3hazFADBifunctional protein PutA/0.476
2v4lABJPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.475
4eagATP5'-AMP-activated protein kinase subunit gamma-1/0.474
3kjiADPCO dehydrogenase/acetyl-CoA synthase complex, accessory protein CooC/0.473
4gb90WRPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.472
2vx07X7Ephrin type-B receptor 42.7.10.10.471
3dds26BGlycogen phosphorylase, liver form2.4.1.10.471
3nc9TR3Ketohexokinase/0.471
2ywwATPAspartate carbamoyltransferase regulatory chain/0.469
4q73FADBifunctional protein PutA/0.469
1zrzBI1Protein kinase C iota type2.7.11.130.468
2chx090Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.467
2vwz7X6Ephrin type-B receptor 42.7.10.10.467
3ssnMVIMycinamicin VI 2''-O-methyltransferase/0.467
4q71FADBifunctional protein PutA/0.467
2vtbFADCryptochrome DASH, chloroplastic/mitochondrial/0.466
3apfBMWPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.466
4ic7ANPMitogen-activated protein kinase 72.7.11.240.466
2ituITQEpidermal growth factor receptor2.7.10.10.465
4wsoNADProbable nicotinate-nucleotide adenylyltransferase/0.463
2itxANPEpidermal growth factor receptor2.7.10.10.462
4g2fC07Ephrin type-A receptor 32.7.10.10.462
3m9vTYDFAD-dependent oxidoreductase/0.461
1fm7DFVChalcone--flavonone isomerase 15.5.1.60.460
1i59ADPChemotaxis protein CheA2.7.13.30.460
2b9xFADPutative aminooxidase/0.460
2rghFADAlpha-Glycerophosphate Oxidase/0.460
3nbvANPKetohexokinase/0.459
1ny3ADPMAP kinase-activated protein kinase 22.7.11.10.458
1g2vTTPGlucose-1-phosphate thymidylyltransferase/0.457
1s5kCOAAminoglycoside N(6')-acetyltransferase type 1/0.457
4u03GTPCyclic GMP-AMP synthase/0.457
2vx17X8Ephrin type-B receptor 42.7.10.10.456
4e93GUITyrosine-protein kinase Fes/Fps2.7.10.20.456
4gk3L87Ephrin type-A receptor 32.7.10.10.456
2a4zBYMPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.455
4a4zANPAntiviral helicase SKI23.6.4.130.455
1gqtACPRibokinase/0.454
1ipeNDPTropinone reductase 21.1.1.2360.454
2d8aNADL-threonine 3-dehydrogenase/0.453
3qaiXNNKetohexokinase/0.452
1bwsNDPGDP-L-fucose synthase/0.451
1y57MPZProto-oncogene tyrosine-protein kinase Src2.7.10.20.451
2b9wFADPutative aminooxidase/0.451
3vjoANPEpidermal growth factor receptor2.7.10.10.451
4bkz1WSMaternal embryonic leucine zipper kinase2.7.11.10.451
5e8wSTUTGF-beta receptor type-12.7.11.300.451
2x3jATPAcsD/0.450
1tj0FADBifunctional protein PutA1.5.5.20.449
1tqf32PBeta-secretase 13.4.23.460.449
2brbPFQSerine/threonine-protein kinase Chk12.7.11.10.449
2xgs44PUncharacterized protein/0.449
2xszATPRuvB-like 23.6.4.120.449
2zpaADPtRNA(Met) cytidine acetyltransferase TmcA/0.449
3d8vUD1Bifunctional protein GlmU/0.449
3h86AP5Adenylate kinase/0.449
3tkiS25Serine/threonine-protein kinase Chk12.7.11.10.449
4jr3KJREpidermal growth factor receptor2.7.10.10.449
2j4dFADCryptochrome DASH, chloroplastic/mitochondrial/0.448
3ibqATPPyridoxal kinase/0.448
4a0rDTBBifunctional dethiobiotin synthetase/7,8-diamino-pelargonic acid aminotransferase, mitochondrial6.3.3.30.448
4qgiROCGag-Pol polyprotein3.4.23.160.448
1u54ACPActivated CDC42 kinase 1/0.447
1zthADPRIO-type serine/threonine-protein kinase Rio12.7.11.10.447
3mvqNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.447
4fhk0U0Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.447
4otpADPSerine/threonine-protein kinase RIO12.7.11.10.447
4q72FADBifunctional protein PutA/0.447
1hwzNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.446
2avvMK1Gag-Pol polyprotein3.4.23.160.446
2cgx3D3Serine/threonine-protein kinase Chk12.7.11.10.446
2vwx7X4Ephrin type-B receptor 42.7.10.10.446
2y8lADP5'-AMP-activated protein kinase subunit gamma-1/0.446
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.446
3uqdATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.446
4ge40KEKynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.446
4ge70K5Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.446
4xiwAZMCarbonic anhydrase, alpha type/0.446
1c70L75Protease/0.445
1kvsUPGUDP-glucose 4-epimerase5.1.3.20.445
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.445
2x9fX9FEphrin type-B receptor 42.7.10.10.445
3hyoADPPyridoxal kinase/0.445
3q92XNBKetohexokinase/0.445
1i5bANPChemotaxis protein CheA2.7.13.30.444
1kqdFMNOxygen-insensitive NAD(P)H nitroreductase/0.444
1rkxNADCDP-D-glucose-4,6-dehydratase/0.444
1xddAAYIntegrin alpha-L/0.444
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.444
2qoqANPEphrin type-A receptor 32.7.10.10.444
2xw19NVSerum albumin/0.444
3etgNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.444
4fl2ANPTyrosine-protein kinase SYK2.7.10.20.444
4o0rX4ZSerine/threonine-protein kinase PAK 12.7.11.10.444
4u0mGTPCyclic GMP-AMP synthase/0.444
1hygNAPL-2-hydroxycarboxylate dehydrogenase (NAD(P)(+))/0.443
1zp9ATPRIO-type serine/threonine-protein kinase Rio12.7.11.10.443
2cgv3B3Serine/threonine-protein kinase Chk12.7.11.10.443
2eb3ANPEpidermal growth factor receptor2.7.10.10.443
3lu8IQXSerum albumin/0.443
4ful0VUPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.443
4gdy0X1Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial2.6.1.390.443
4xwtU5PRibonuclease J/0.443
1dxyNADD-2-hydroxyisocaproate dehydrogenase1.1.10.442
2a94AP0L-lactate dehydrogenase1.1.1.270.442
3junAKDPhenazine biosynthesis protein A/B/0.442
4isuIKMGlutamate receptor 2/0.442
3enkUPGUDP-glucose 4-epimerase/0.441
3etdNDPGlutamate dehydrogenase 1, mitochondrial1.4.1.30.441
3ge1ADPGlycerol kinase/0.441
4ewn0VRImidazole glycerol phosphate synthase subunit HisF4.1.30.441
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.441
1necFMNOxygen-insensitive NAD(P)H nitroreductase10.440
1svmATPLarge T antigen3.6.40.440
2cmjNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.440
2xvdAS6Ephrin type-B receptor 42.7.10.10.440
2ztvNADD(-)-3-hydroxybutyrate dehydrogenase/0.440
3jqpA2PFerredoxin--NADP reductase, apicoplast/0.440
3oquA8SAbscisic acid receptor PYL9/0.440
3t8oATPRhodopsin kinase/0.440
3umoATPATP-dependent 6-phosphofructokinase isozyme 22.7.1.110.440
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.440