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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
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.180

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3mteSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1801.000
3p2kSAM16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.632
5dp2NAPCurF/0.495
3p2eSAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.494
3pb3SAH16S rRNA (adenine(1408)-N(1))-methyltransferase2.1.1.1800.487
1d3pBT3Prothrombin3.4.21.50.459
4bfxZVXPantothenate kinase2.7.1.330.458
3cinNADMyo-inositol-1-phosphate synthase-related protein/0.455
3c1kT15Prothrombin3.4.21.50.451
4obwSAM2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial/0.451
2anmCDOProthrombin3.4.21.50.449
4bfsZVSPantothenate kinase2.7.1.330.446
1nm6L86Prothrombin3.4.21.50.445
1ve3SAMUncharacterized protein/0.445
2r2mI50Prothrombin3.4.21.50.445
2zevB71Geranylgeranyl pyrophosphate synthase/0.445
4bftZVTPantothenate kinase2.7.1.330.445
1t4u81AProthrombin3.4.21.50.444
4kq6DLZ6,7-dimethyl-8-ribityllumazine synthase/0.444
2bdyUNBProthrombin3.4.21.50.443
4ax9N5NProthrombin3.4.21.50.443
5d1nSAHUncharacterized protein/0.441
1ta6177Prothrombin3.4.21.50.440
2aotSAHHistamine N-methyltransferase2.1.1.80.440
2jh0701Prothrombin3.4.21.50.440
3ha5SFGHydroxymycolate synthase MmaA42.1.10.440