Protein Info for CSW01_11905 in Vibrio cholerae E7946 ATCC 55056
Annotation: thymidine phosphorylase
These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.
Protein Families and Features
Best Hits
Swiss-Prot: 100% identical to TYPH_VIBCH: Thymidine phosphorylase (deoA) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
KEGG orthology group: K00758, thymidine phosphorylase [EC: 2.4.2.4] (inferred from 100% identity to vco:VC0395_A1928)MetaCyc: 71% identical to thymidine phosphorylase (Escherichia coli K-12 substr. MG1655)
Pyrimidine-nucleoside phosphorylase. [EC: 2.4.2.2, 2.4.2.3]; Thymidine phosphorylase. [EC: 2.4.2.2, 2.4.2.3, 2.4.2.4]
Predicted SEED Role
"Thymidine phosphorylase (EC 2.4.2.4)" in subsystem Deoxyribose and Deoxynucleoside Catabolism (EC 2.4.2.4)
MetaCyc Pathways
- superpathway of pyrimidine deoxyribonucleosides degradation (6/6 steps found)
- pyrimidine deoxyribonucleosides degradation (3/3 steps found)
- pyrimidine ribonucleosides degradation (2/2 steps found)
- superpathway of pyrimidine ribonucleosides degradation (2/5 steps found)
- nucleoside and nucleotide degradation (archaea) (4/10 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 2.4.2.3
Use Curated BLAST to search for 2.4.2.2 or 2.4.2.3 or 2.4.2.4
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
Find the best match in UniProt
Protein Sequence (448 amino acids)
>CSW01_11905 thymidine phosphorylase (Vibrio cholerae E7946 ATCC 55056) MSLSQAKYLPQEIIRRKRDGEVLTNDEINFFIQGVANNTVSEGQIAAFAMAIFFREMTMP ERIALTCAMRDSGMVIDWSHMNFDGPIVDKHSTGGVGDVTSLMLGPMVAACGGYVPMISG RGLGHTGGTLDKLEAIPGYNITPTNDVFGKVTKQAGVAIIGQTGDLAPADKRVYATRDIT ATVDNISLITASILSKKLAAGLESLVMDVKVGSGAFMPTYEASEELAKSIVAVANGAGTN TTAILTDMNQVLASSAGNAVEVREAVRFLTGEYRNPRLLEVTMASCAEMLVLGKLAKDTA QAREKLQAVLDNGQAADRFGKMVAGLGGPSDFVENYDKYLAKAEIIRPVYAQQSGVISAM DTRAIGMAVVGMGGGRRVATDRIDYAVGFDQFIRLGEIADSNKPLAMIHARNEEQWQQAA NALQSAIKVGGDYLPTPDVYRQIRAQDV