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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
1af7SAHChemotaxis protein methyltransferase2.1.1.80

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
1af7SAHChemotaxis protein methyltransferase2.1.1.801.000
1bc5SAHChemotaxis protein methyltransferase2.1.1.800.595
5e8jSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.489
5f2kSAHUncharacterized protein/0.489
1nbiSAMGlycine N-methyltransferase2.1.1.200.486
4obwSAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial/0.482
3ou2SAHSAM-dependent methyltransferase/0.481
3q44D50M1 family aminopeptidase3.4.110.479
3kpjSAHPhenylethanolamine N-methyltransferase2.1.1.280.474
4rtoSFGDNA adenine methylase2.1.1.720.473
3r8vZ62Cyclin-dependent kinase 22.7.11.220.472
3ou7SAMSAM-dependent methyltransferase/0.470
5epeSAHUncharacterized protein/0.470
1sg9SAMRelease factor glutamine methyltransferase2.1.1.2970.468
1e2nRCAThymidine kinase/0.465
1ve3SAMUncharacterized protein/0.465
1wy7SAHUncharacterized protein/0.465
5e72SAMN2, N2-dimethylguanosine tRNA methyltransferase/0.465
4hh4SAHCcbJ/0.461
1wg8SAMRibosomal RNA small subunit methyltransferase H/0.459
5je4SAHMethyl transferase/0.459
3ha3SAHHydroxymycolate synthase MmaA42.1.10.458
3orhSAHGuanidinoacetate N-methyltransferase2.1.1.20.458
1rjeSAHLeucine carboxyl methyltransferase 12.1.1.2330.456
1susSAHCaffeoyl-CoA O-methyltransferase2.1.1.1040.456
1efaNPFLactose operon repressor/0.455
2cleF6FTryptophan synthase alpha chain/0.455
3s1dZIRCytokinin dehydrogenase 11.5.99.120.455
1kiaSAMGlycine N-methyltransferase2.1.1.200.454
1w1rZEACytokinin dehydrogenase 11.5.99.120.454
3bgvSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.454
3fcjFADNitroalkane oxidase1.7.3.10.454
3if9FADGlycine oxidase1.4.3.190.454
2ojg19AMitogen-activated protein kinase 12.7.11.240.453
3sdi3SDProteasome subunit beta type-53.4.25.10.453
3sdi3SDProteasome subunit beta type-63.4.25.10.453
1qanSAHrRNA adenine N-6-methyltransferase2.1.1.1840.452
3axsSFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase/0.452
3pdqKC6Lysine-specific demethylase 4A1.14.110.452
4giy0WYQueuine tRNA-ribosyltransferase2.4.2.290.452
4krhSAMPhosphoethanolamine N-methyltransferase 2/0.452
1nv8SAMRelease factor glutamine methyltransferase2.1.1.2970.451
4bvnP32Beta-1 adrenergic receptor/0.451
2h00SAHU6 small nuclear RNA (adenine-(43)-N(6))-methyltransferase/0.450
3d7kD7KBenzaldehyde lyase/0.450
3ou6SAMSAM-dependent methyltransferase/0.450
1cqp803Integrin alpha-L/0.449
2cgv3B3Serine/threonine-protein kinase Chk12.7.11.10.449
3ox4NADAlcohol dehydrogenase 21.1.1.10.449
4jln18VDeoxycytidine kinase2.7.1.740.449
5iqiGNPBifunctional AAC/APH2.3.10.449
1daz0Q4Gag-Pol polyprotein3.4.23.160.448
1kphSAHCyclopropane mycolic acid synthase 12.1.1.790.448
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.448
3iaeD7KBenzaldehyde lyase/0.448
3oxk5GPHistidine triad nucleotide-binding protein30.448
4mwzSAMPhosphoethanolamine N-methyltransferase, putative/0.448
4rtsSAMDNA adenine methylase2.1.1.720.448
4zvmDM2Ribosyldihydronicotinamide dehydrogenase [quinone]/0.448
3cjqSAHRibosomal protein L11 methyltransferase2.1.10.447
3go4SAHUncharacterized protein/0.447
1g6oADPCag alpha/0.446
4ftr5HKSerine/threonine-protein kinase Chk12.7.11.10.446
4opgFDAConserved Archaeal protein/0.446
4rtlSFGDNA adenine methylase2.1.1.720.446
4upjU04Gag-Pol polyprotein/0.446
1rx1NAPDihydrofolate reductase1.5.1.30.445
3oibFDAPutative acyl-CoA dehydrogenase/0.445
4gyy12VUDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit/0.445
2bifANP6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 42.7.1.1050.444
2ouu35GcAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A3.1.4.170.444
3lgaSAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI2.1.1.2190.444
3s1sSAHRestriction endonuclease BpuSI/0.444
4rtpSAMDNA adenine methylase2.1.1.720.444
1culFOKAdenylate cyclase type 2/0.443
1culFOKAdenylate cyclase type 5/0.443
2gs9SAHUncharacterized protein/0.443
3eeySAMrRNA methylase/0.443
3eldSFGMethyltransferase/0.443
3grrSAHProbable ribosomal RNA small subunit methyltransferase A/0.443
3hl0NADMaleylacetate reductase/0.443
3w5rLOAVitamin D3 receptor/0.443
4ax8SAMO-antigen chain terminator bifunctional methyltransferase/kinase WbdD/0.443
1getFADGlutathione reductase1.8.1.70.442
1n06ADPRiboflavin kinase2.7.1.260.442
1w06W05Isopenicillin N synthase1.21.3.10.442
2a4xBLMMitomycin-binding protein/0.442
2e9v85ASerine/threonine-protein kinase Chk12.7.11.10.442
2h2qNAPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.442
2xfjVG5Beta-secretase 13.4.23.460.442
3gdpFAD(R)-mandelonitrile lyase 24.1.2.100.442
4rtnSAHDNA adenine methylase2.1.1.720.442
3pblETQD(3) dopamine receptor/0.442
1obnASVIsopenicillin N synthase1.21.3.10.441
2wjoQUDBeta-secretase 13.4.23.460.441
4hle17VPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
5eghPCEctonucleotide pyrophosphatase/phosphodiesterase family member 6/0.441
5iqeGNPBifunctional AAC/APH2.3.10.441
1g5sI17Cyclin-dependent kinase 22.7.11.220.440
2j08IRFDeoxyribodipyrimidine photo-lyase4.1.99.30.440
3elySAHMethyltransferase/0.440
3q7fED2Uncharacterized protein/0.440