Protein Info for GFF1540 in Variovorax sp. SCN45

Annotation: RsbS, negative regulator of sigma-B

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 50 124 transmembrane" amino acids 71 to 91 (21 residues), see Phobius details PF01740: STAS" amino acids 10 to 105 (96 residues), 35.4 bits, see alignment E=3.9e-13

Best Hits

Swiss-Prot: 47% identical to RSBS_BACSU: RsbT antagonist protein RsbS (rsbS) from Bacillus subtilis (strain 168)

KEGG orthology group: None (inferred from 85% identity to aaa:Acav_2325)

Predicted SEED Role

"RsbS, negative regulator of sigma-B" in subsystem SigmaB stress responce regulation

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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

Find the best match in UniProt

Protein Sequence (124 amino acids)

>GFF1540 RsbS, negative regulator of sigma-B (Variovorax sp. SCN45)
MDRIPILRMGDTLLVTIQVDMQDQTALTLQDDLSNQIARTGASGVMIDISALEIVDSFVG
RMLTSISGIARILSATTVVVGMQPAVAITLVELGLSLEGVRTALNVERGMELLQRSRQEN
VLGR