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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
2o07MTASpermidine synthase2.5.1.16

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
2o07MTASpermidine synthase2.5.1.161.000
4yuzS4MSpermidine synthase, putative/0.570
4yv1S4MSpermidine synthase, putative/0.560
4yv0S4MSpermidine synthase, putative/0.527
4yv2S4MSpermidine synthase, putative/0.499
2o06MTASpermidine synthase2.5.1.160.457
4h4uNDPBiphenyl dioxygenase ferredoxin reductase subunit/0.454
2qfxNDPIsocitrate dehydrogenase [NADP], mitochondrial1.1.1.420.452
3inmNDPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.451
4kzoNAPIsocitrate dehydrogenase [NADP] cytoplasmic1.1.1.420.447
2hmaSAMtRNA-specific 2-thiouridylase MnmA/0.446
3wbbNAPMeso-diaminopimelate D-dehydrogenase/0.446
3rw9DSHSpermidine synthase2.5.1.160.444
2h3wCOACarnitine O-acetyltransferase2.3.1.70.443
2ii6C5PAlpha-2,3/2,6-sialyltransferase/sialidase/0.443
2nruT12Interleukin-1 receptor-associated kinase 42.7.11.10.443
3jskAHZThiamine thiazole synthase/0.443
1ke6LS2Cyclin-dependent kinase 22.7.11.220.442
1u3dFADCryptochrome-1/0.440
3qofGDPAtlastin-13.6.50.440
3tmz06XCytochrome P450 2B41.14.14.10.440