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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
5d8u0N8Polymerase acidic protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5d8u0N8Polymerase acidic protein/1.000
4e5h0N8Polymerase acidic protein/0.604
4avgSL6Polymerase acidic protein/0.582
4e5lDBHPolymerase acidic protein/0.537
5fdg0N8Polymerase acidic protein/0.535
4x81MVIMycinamicin III 3''-O-methyltransferase2.1.1.2370.508
4ddhMS0Pantothenate synthetase6.3.2.10.498
3ex8AIFRiboflavin biosynthesis protein RibD1.1.1.1930.491
4yal2AMNADPH--cytochrome P450 reductase/0.489
4x7zZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.488
3iobA4DPantothenate synthetase6.3.2.10.484
5hg0SAMPantothenate synthetase/0.481
2zs9ADPPantothenate kinase2.7.1.330.476
1dliUDXUDP-glucose 6-dehydrogenase/0.474
4ug71EVNitric oxide synthase oxygenase1.14.13.1650.474
4y6gF6FTryptophan synthase alpha chain/0.471
4fgcPQ0NADPH-dependent 7-cyano-7-deazaguanine reductase1.7.1.130.468
5cgv0N8Polymerase acidic protein/0.468
4x7wMVIMycinamicin III 3''-O-methyltransferase2.1.1.2370.464
4yau2AMNADPH--cytochrome P450 reductase/0.463
5d9j0N8Polymerase acidic protein/0.463
4x7uZM3Mycinamicin III 3''-O-methyltransferase2.1.1.2370.462
4x7vMIVMycinamicin III 3''-O-methyltransferase2.1.1.2370.462
4dpwAGSMevalonate diphosphate decarboxylase/0.461
1lb9DNQGlutamate receptor 2/0.460
4awgCI3Polymerase acidic protein/0.460
5e8jSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.459
2clmF6FTryptophan synthase alpha chain/0.456
2poqISDTrans-1,2-dihydrobenzene-1,2-diol dehydrogenase1.3.1.200.456
3h03UBPGlutamate receptor 2/0.456
4yao2AMNADPH--cytochrome P450 reductase/0.456
2oz57XYUncharacterized protein/0.455
4h6pFMNChromate reductase/0.455
4n9qFMNFMN-dependent NADH-azoreductase 1/0.455
1vbnYSATyrosine--tRNA ligase6.1.1.10.454
3zxiTYATyrosine--tRNA ligase, mitochondrial6.1.1.10.454
1dljUGAUDP-glucose 6-dehydrogenase/0.452
1towCRZFatty acid-binding protein, adipocyte/0.451
1vc9ATPDiadenosine hexaphosphate hydrolase3.6.1.610.451
2clfF6FTryptophan synthase alpha chain/0.449
4fvz4KJNitric oxide synthase, brain1.14.13.390.449
1j7lADPAminoglycoside 3'-phosphotransferase2.7.1.950.448
3q2jCKIAminoglycoside 3'-phosphotransferase2.7.1.950.447
3rbvNAPSugar 3-ketoreductase/0.447
2b0qADPAminoglycoside 3'-phosphotransferase2.7.1.950.446
2v95HCYCorticosteroid-binding globulin/0.446
4bgbADPPredicted molecular chaperone distantly related to HSP70-fold metalloproteases/0.446
3imgBZ3Pantothenate synthetase6.3.2.10.445
2qtrNXXProbable nicotinate-nucleotide adenylyltransferase/0.443
4h2w5GPAmino acid--[acyl-carrier-protein] ligase 16.2.1.n20.443
5hvnNAD3-dehydroquinate synthase/0.443
1n2eAPCPantothenate synthetase6.3.2.10.442
2zs8ADPPantothenate kinase2.7.1.330.442
1vbmYSATyrosine--tRNA ligase6.1.1.10.441
1x2hLPALipoate-protein ligase A6.3.1.200.441
3ioeA7DPantothenate synthetase6.3.2.10.441
1uofPNNDeacetoxycephalosporin C synthase1.14.20.10.440
2bf4FADNADPH--cytochrome P450 reductase/0.440
3t5iSER_SER_CMT_FARRetinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta/0.440