Protein Info for HER17_RS15410 in Pectobacterium carotovorum WPP14

Annotation: outer membrane protein assembly factor BamC

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 50 100 150 200 250 300 345 signal peptide" amino acids 1 to 28 (28 residues), see Phobius details PF06804: Lipoprotein_18" amino acids 40 to 343 (304 residues), 384.5 bits, see alignment E=1.7e-119

Best Hits

Swiss-Prot: 71% identical to BAMC_YERPE: Outer membrane protein assembly factor BamC (bamC) from Yersinia pestis

KEGG orthology group: K07287, lipoprotein-34 (inferred from 96% identity to pct:PC1_1140)

Predicted SEED Role

"Outer membrane protein NlpB, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and YfgL); Lipoprotein-34 precursor"

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 (345 amino acids)

>HER17_RS15410 outer membrane protein assembly factor BamC (Pectobacterium carotovorum WPP14)
MSYSLQKSMVAKVVGISLVMLLAACSSDQRYKRQVSGDESYLKAPALHALNTPAGMILPV
QNGDYDIPPVTLNGAVGKELDIRPPVQPLALLNGSRTQISGDTATLLLENSAQNSQLWSQ
VIRVLQDKAFTIASRQDASQTLTTDWISWPREDEDVPYQGRYQISVQQQGYQVALVVKLL
GLQLNGQPVTTGDQAQRYTGLMLNALSNGLDSQATARENALANRTIGSLDVQSGADDTGL
PLLIVRGPYTVVWDRLPVALDKIGMKVNDRSRPQGSVSVTYRAPSGGTWDDLGAKNPELP
NGDYKLQVGDLDNRSSLQFIDSKGHTLTQSQNDALVAVFQAAFSK