Logo scPDB

sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

Logo CNRS Logo Unistra
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
3grySAMProbable ribosomal RNA small subunit methyltransferase A

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3grySAMProbable ribosomal RNA small subunit methyltransferase A/1.000
3grrSAHProbable ribosomal RNA small subunit methyltransferase A/0.564
1zq9SAMProbable dimethyladenosine transferase/0.513
3tljSAHUncharacterized protein/0.486
3swrSFGDNA (cytosine-5)-methyltransferase 12.1.1.370.484
3tm5SFGUncharacterized protein/0.476
3egvSAHRibosomal protein L11 methyltransferase2.1.10.469
1nw5SAMModification methylase RsrI2.1.1.720.465
3a9wNADNDP-sugar epimerase/0.464
1ebyBEBGag-Pol polyprotein3.4.23.160.458
5bp7SAHSAM-dependent methyltransferase/0.458
4rupH97Vitamin D3 receptor A/0.452
1d4jMSCGag-Pol polyprotein3.4.23.160.451
1wvgAPRCDP-glucose 4,6-dehydratase4.2.1.450.451
1y0s331Peroxisome proliferator-activated receptor delta/0.451
4ia2BIVVitamin D3 receptor A/0.451
2he5NDPAldo-keto reductase family 1 member C211.1.10.449
3cyxROCGag-Pol polyprotein3.4.23.160.449
4a6bQG8Gag-Pol polyprotein3.4.23.160.449
3ajrNADNDP-sugar epimerase/0.447
1c6yMK1Protease/0.446
3bgcLJHGag-Pol polyprotein3.4.23.160.446
4anx534Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.446
1mrwK57Gag-Pol polyprotein3.4.23.160.445
2hcdBIVVitamin D3 receptor A/0.445
3tm4SAMUncharacterized protein/0.444
1izhQ50Protease/0.443
2w9sTOPDihydrofolate reductase type 1 from Tn40031.5.1.30.443
4ia7BIVVitamin D3 receptor A/0.443
1hpxKNIGag-Pol polyprotein/0.442
2r5q1UNGag-Pol polyprotein/0.442
1idb0DOGag-Pol polyprotein/0.441
1d4iBEGGag-Pol polyprotein3.4.23.160.440
1wbk568Pol protein/0.440
1wbmBLLPol protein/0.440
2bpv1INGag-Pol polyprotein3.4.23.160.440
2uxuNARHTH-type transcriptional regulator TtgR/0.440
3kddJZQGag-Pol polyprotein3.4.23.160.440