Protein Info for Shew_1828 in Shewanella loihica PV-4

Annotation: peptidoglycan binding domain-containing 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 50 100 150 200 250 300 350 400 458 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF01471: PG_binding_1" amino acids 146 to 198 (53 residues), 36.2 bits, see alignment 5.5e-13 PF03734: YkuD" amino acids 226 to 391 (166 residues), 77.9 bits, see alignment E=1.3e-25

Best Hits

KEGG orthology group: None (inferred from 100% identity to slo:Shew_1828)

Predicted SEED Role

"L,D-transpeptidase YcbB"

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 A3QDZ6 at UniProt or InterPro

Protein Sequence (458 amino acids)

>Shew_1828 peptidoglycan binding domain-containing protein (RefSeq) (Shewanella loihica PV-4)
MALRRIFILLLLCWSCLGVADERLAAANQALLDQVEVIHLASASSEFERYREQLSVERAL
SPARLYTIALAAAQFWQRQGIATGEFPSAPDDPYTSVIASEPQVADYLMLSNRVRYLLWL
ARHESWLPLEPQGWLKPGDSHRIIPEIRVRLQALGDYPQGDTSGLYFDETLKAAMIKFQT
RHGLKPDAIIGPATLSWLNRTPRERAQLLAVNFIRRAEYLADIGERYLLINIPAYEMWLV
DDNQVALRSKVIVGKPYRQTPIISGEIKNLVLNPSWRVPRRLLTHDLLPKVREDGSYISS
RNFEVFDYQGERVIKSDDEWRDIAKGKFPYRLVQKPGVGNTLGRYKFFFPNEYSVYLHDT
SDKALFQRSDRALSSGCIRIEKVEQLANWMASHLVRDKQTWVRMQIERDKTQWFAFDAGL
PIHLVYWTSWLDDDNVAQFRDDIYKKNQNISLSLHAAK