Protein Info for b3995 in Escherichia coli BW25113

Name: rsd
Annotation: stationary phase protein, binds sigma 70 RNA polymerase subunit (NCBI)

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

1 50 100 158 PF04353: Rsd_AlgQ" amino acids 1 to 147 (147 residues), 172.8 bits, see alignment E=2.5e-55

Best Hits

Swiss-Prot: 100% identical to RSD_SHIF8: Regulator of sigma D (rsd) from Shigella flexneri serotype 5b (strain 8401)

KEGG orthology group: K07740, regulator of sigma D (inferred from 100% identity to eco:b3995)

MetaCyc: 100% identical to regulator of sigma D (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Regulator of sigma D"

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

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

See P0AFX4 at UniProt or InterPro

Protein Sequence (158 amino acids)

>b3995 stationary phase protein, binds sigma 70 RNA polymerase subunit (NCBI) (Escherichia coli BW25113)
MLNQLDNLTERVRGSNKLVDRWLHVRKHLLVAYYNLVGIKPGKESYMRLNEKALDDFCQS
LVDYLSAGHFSIYERILHKLEGNGQLARAAKIWPQLEANTQQIMDYYDSSLETAIDHDNY
LEFQQVLSDIGEALEARFVLEDKLILLVLDAARVKHPA