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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Cavity similarities measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Cavities 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

Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
5a8aFMNRiboflavin biosynthesis protein RibF2.7.1.26

Complex with similar cavities

PDB ID HET Uniprot Name EC Number Cavity
Similarity		 Align
5a8aFMNRiboflavin biosynthesis protein RibF2.7.1.261.000
5a89FMNRiboflavin biosynthesis protein RibF2.7.1.260.571
4a802ANMajor pollen allergen Bet v 1-A/0.471
1n07FMNRiboflavin kinase2.7.1.260.468
4ks7X4ZSerine/threonine-protein kinase PAK 62.7.11.10.457
2e9n76ASerine/threonine-protein kinase Chk12.7.11.10.455
4i6aHMG3-hydroxy-3-methylglutaryl-coenzyme A reductase1.1.1.880.455
4gg70J8Hepatocyte growth factor receptor2.7.10.10.454
3u9n09HSerine/threonine-protein kinase Chk12.7.11.10.453
2xj2985Serine/threonine-protein kinase pim-12.7.11.10.452
5e8ySTUTGF-beta receptor type-22.7.11.300.452
2c3lIDZSerine/threonine-protein kinase Chk12.7.11.10.449
1in5ADPHolliday junction ATP-dependent DNA helicase RuvB/0.448
4ap7F47Hepatocyte growth factor receptor2.7.10.10.448
4fkr45KCyclin-dependent kinase 22.7.11.220.448
1fm4DXCMajor pollen allergen Bet v 1-L/0.447
4nmbFADBifunctional protein PutA/0.447
2c3kABOSerine/threonine-protein kinase Chk12.7.11.10.446
3sheI85MAP kinase-activated protein kinase 32.7.11.10.446
4a8v2ANMajor pollen allergen Bet v 1-J/0.446
2x8iX8ISerine/threonine-protein kinase Chk12.7.11.10.445
4ie5MD6Alpha-ketoglutarate-dependent dioxygenase FTO/0.445
2emuSAHDiphthine synthase/0.444
3sw719KCyclin-dependent kinase 22.7.11.220.444
1zys199Serine/threonine-protein kinase Chk12.7.11.10.443
3dgaNDPBifunctional dihydrofolate reductase-thymidylate synthase1.5.1.30.443
4fkq42KCyclin-dependent kinase 22.7.11.220.443
4ma628EAra h 8 allergen/0.443
1pdhFASp-hydroxybenzoate hydroxylase/0.442
3b895GP16S rRNA methylase/0.442
4h4zFADBiphenyl dioxygenase ferredoxin reductase subunit/0.442
1rdwLARActin, alpha skeletal muscle/0.441
2brgDFYSerine/threonine-protein kinase Chk12.7.11.10.441
3fwfCAMCamphor 5-monooxygenase1.14.15.10.441
4flh14KPhosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit gamma isoform2.7.1.1530.441
1v0pPVBCell division control protein 2 homolog2.7.11.220.440
1zrzBI1Protein kinase C iota type2.7.11.130.440
2ch6ADPN-acetyl-D-glucosamine kinase2.7.1.590.440
2jamJ60Calcium/calmodulin-dependent protein kinase type 1G2.7.11.170.440
2vtjLZ4Cyclin-dependent kinase 22.7.11.220.440