Protein Info for SO0033 in Shewanella oneidensis MR-1

Annotation: LysM domain protein (NCBI ptt file)

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 50 100 150 200 250 300 350 378 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF01476: LysM" amino acids 36 to 82 (47 residues), 39.7 bits, see alignment 1.9e-14

Best Hits

KEGG orthology group: None (inferred from 100% identity to son:SO_0033)

Predicted SEED Role

"Uncharacterized protein with LysM domain, COG1652" in subsystem Conserved gene cluster associated with Met-tRNA formyltransferase

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 Q8EKQ7 at UniProt or InterPro

Protein Sequence (378 amino acids)

>SO0033 LysM domain protein (NCBI ptt file) (Shewanella oneidensis MR-1)
MDRTMKRLILLALMTFNSTLVFADTLTLKAGHPESYVVKKGDTLWDISTTFLNDPWKWPR
LWDVNPQIANPHLIYPGDQLTLVFIDGQPRLVRNGASVSTSEAKPHIRKSPEGRVIAKSN
AIPAVDLALIQNYLVQNRVVDADWFIQQPMVLAGESPSRHHVIGDVIYINSELPLHQKLG
VYERGREFFNKETGEALGQEAILASTGQVIESGKVSKVKLLSNFRETKAGFRVLPLEDEA
LMSAYFTPKPAELKTSASVLAIESKMREAGKLNVVYLDKGTQDGVKPGEVFSIYRDGEEI
VINNDGQPVPVMERTAYDDVVASLSSDRSLKMPDVYNGKLLVFKVFDKASLGLIVSTERS
VRVDDKLIAPDILAFRGQ