Protein Info for HER17_RS13475 in Pectobacterium carotovorum WPP14

Annotation: CidA/LrgA family protein

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 50 100 135 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 39 to 59 (21 residues), see Phobius details amino acids 67 to 86 (20 residues), see Phobius details amino acids 92 to 113 (22 residues), see Phobius details PF03788: LrgA" amino acids 23 to 114 (92 residues), 108 bits, see alignment E=9.4e-36

Best Hits

Swiss-Prot: 99% identical to Y1498_PECCP: UPF0299 membrane protein PC1_1498 (PC1_1498) from Pectobacterium carotovorum subsp. carotovorum (strain PC1)

KEGG orthology group: K06518, holin-like protein (inferred from 98% identity to eca:ECA2828)

Predicted SEED Role

"Antiholin-like protein LrgA" 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)

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

Find the best match in UniProt

Protein Sequence (135 amino acids)

>HER17_RS13475 CidA/LrgA family protein (Pectobacterium carotovorum WPP14)
MRNTFIVCWQYLRAFALIYLCLLAGNAVSALLPFTIPGSIIGMLVLFTLLASQILPAQWV
KPGCHLLIRHMALLFVPIGVGVMNYYDLVSQQFGPIVVSCLISTFIVMLVVGFSTQIMQR
ERAVAGDRTPPKDNE