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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
3kpjSAHPhenylethanolamine N-methyltransferase2.1.1.28

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3kpjSAHPhenylethanolamine N-methyltransferase2.1.1.281.000
2i62SAHNicotinamide N-methyltransferase2.1.1.10.513
2a14SAHIndolethylamine N-methyltransferase2.1.1.490.510
4krhSAMPhosphoethanolamine N-methyltransferase 2/0.501
4necSAHPutative SAM-dependent methyltransferase/0.497
4r6xSAHPhosphoethanolamine N-methyltransferase/0.494
3ou7SAMSAM-dependent methyltransferase/0.492
4qtuSAM18S rRNA (guanine(1575)-N(7))-methyltransferase/0.490
3ssoSAHMycinamicin VI 2''-O-methyltransferase/0.489
3tm4SAMUncharacterized protein/0.480
3ou2SAHSAM-dependent methyltransferase/0.479
3e8sSAHUncharacterized protein/0.478
2eg5SAH7-methylxanthosine synthase 1/0.476
4iv0SAMPhosphoethanolamine N-methyltransferase, putative/0.473
1yf3SAHDNA adenine methylase/0.472
1kiaSAMGlycine N-methyltransferase2.1.1.200.471
2bzgSAHThiopurine S-methyltransferase2.1.1.670.470
2fk8SAMHydroxymycolate synthase MmaA42.1.10.470
5jjrSAHGenome polyprotein/0.470
3uj7SAMPhosphoethanolamine N-methyltransferase/0.467
1af7SAHChemotaxis protein methyltransferase2.1.1.800.466
1nbiSAMGlycine N-methyltransferase2.1.1.200.466
3vsxR32Renin3.4.23.150.466
4obwSAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial/0.466
4rv9SAHD-mycarose 3-C-methyltransferase/0.466
1skmSAHModification methylase HhaI2.1.1.370.465
4fgzSAHPhosphoethanolamine N-methyltransferase/0.465
2gs9SAHUncharacterized protein/0.464
3uj8SFGPhosphoethanolamine N-methyltransferase/0.464
3tm5SFGUncharacterized protein/0.463
3up0D7SaceDAF-12/0.463
1qsrACOHAT A1/0.462
5icfSAH(S)-norcoclaurine 6-O-methyltransferase/0.462
3jpuTY4Transcriptional activator protein LasR/0.461
3ou6SAMSAM-dependent methyltransferase/0.461
3tljSAHUncharacterized protein/0.461
3bgvSAHmRNA cap guanine-N7 methyltransferase2.1.1.560.460
3reoSAH(Iso)eugenol O-methyltransferase2.1.1.1460.460
1ve3SAMUncharacterized protein/0.459
2zfuSAHRibosomal RNA-processing protein 8/0.458
1bim0QBRenin3.4.23.150.457
3b3fSAHHistone-arginine methyltransferase CARM1/0.456
5je3SAHMethyl transferase/0.456
5mhtSAHModification methylase HhaI2.1.1.370.456
3p9kSAHCaffeic acid O-methyltransferase/0.455
5dqrFAD7-hydroxymethyl chlorophyll a reductase, chloroplastic1.17.7.20.455
3ssmSAHMycinamicin VI 2''-O-methyltransferase/0.454
2ph6712Beta-secretase 13.4.23.460.453
5irnADPNucleotide binding oligomerization domain containing 2/0.453
3u9fCLMChloramphenicol acetyltransferase2.3.1.280.452
10mhSAHModification methylase HhaI2.1.1.370.451
3lgaSAHtRNA (adenine(57)-N(1)/adenine(58)-N(1))-methyltransferase TrmI2.1.1.2190.451
2xveFADPutative flavin-containing monooxygenase/0.450
3grrSAHProbable ribosomal RNA small subunit methyltransferase A/0.450
4fqsLYAThymidylate synthase ThyA/0.450
1kphSAHCyclopropane mycolic acid synthase 12.1.1.790.449
3gw9VNILanosterol 14-alpha-demethylase/0.449
4at3LTIBDNF/NT-3 growth factors receptor2.7.10.10.449
4lxjLANLanosterol 14-alpha demethylase1.14.13.700.449
1jtqLY3Thymidylate synthase/0.448
3vyfVYFRenin3.4.23.150.448
1nw5SAMModification methylase RsrI2.1.1.720.447
3vydVYDRenin3.4.23.150.447
1i5rHYCEstradiol 17-beta-dehydrogenase 11.1.1.620.446
4e2xSAHMethyltransferase/0.446
5bp9SAHPutative methyltransferase protein/0.446
8mhtSAHModification methylase HhaI2.1.1.370.446
2fiwACOGCN5-related N-acetyltransferase:Aminotransferase, class-II/0.445
4mwzSAMPhosphoethanolamine N-methyltransferase, putative/0.445
4ri1ACOUDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase2.3.1.2020.445
2il2LIXRenin3.4.23.150.444
4iv8SAMPhosphoethanolamine N-methyltransferase,putative/0.444
3n1s5GPPurine nucleoside phosphoramidase/0.443
3py0SU9Cyclin-dependent kinase 22.7.11.220.443
1fdtESTEstradiol 17-beta-dehydrogenase 11.1.1.620.442
2iyaZIOOleandomycin glycosyltransferase/0.442
2nrySTUInterleukin-1 receptor-associated kinase 42.7.11.10.442
3byzH11Corticosteroid 11-beta-dehydrogenase isozyme 11.1.1.1460.442
3vucHHERenin3.4.23.150.442
4frjDWBBeta-secretase 13.4.23.460.442
4to1DCPDeoxynucleoside triphosphate triphosphohydrolase SAMHD13.1.50.442
5jr3SAHCarminomycin 4-O-methyltransferase DnrK2.1.1.2920.442
3bw2FMNPutative 2-nitropropane dioxygenase/0.441
5d4vYGPUncharacterized protein MJ0489/0.441
5f2kSAHUncharacterized protein/0.441
2dvlFADAcyl-CoA dehydrogenase/0.440
2g1a5HGClass B acid phosphatase3.1.3.20.440
3lpgZ78Beta-glucuronidase3.2.1.310.440
4qmpDKISerine/threonine-protein kinase 242.7.11.10.440