Protein Info for Shew_0829 in Shewanella loihica PV-4

Annotation: LrgA family protein (RefSeq)

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 50 100 139 signal peptide" amino acids 1 to 28 (28 residues), see Phobius details transmembrane" amino acids 37 to 58 (22 residues), see Phobius details amino acids 67 to 89 (23 residues), see Phobius details amino acids 95 to 118 (24 residues), see Phobius details PF03788: LrgA" amino acids 26 to 117 (92 residues), 72 bits, see alignment E=1.6e-24

Best Hits

Swiss-Prot: 33% identical to CIDA_BACSU: Holin-like protein CidA (cidA) from Bacillus subtilis (strain 168)

KEGG orthology group: K06518, holin-like protein (inferred from 100% identity to slo:Shew_0829)

Predicted SEED Role

"Holin-like protein CidA" in subsystem Murein hydrolase regulation and cell death

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

See A3QB53 at UniProt or InterPro

Protein Sequence (139 amino acids)

>Shew_0829 LrgA family protein (RefSeq) (Shewanella loihica PV-4)
MATYLPPLRNLLQLLLQVGLLSLLALAAQWLVTRLALPLPSGVIGLAALLALLALNWLPE
RFVARGAAWLLGELLLFFIPPVVASMHYAPLLEQYGVSLLCTLVLGSVSVLLITGFVIDR
VFKYERRLRQAGAAKAVGV