Protein Info for HER17_RS09385 in Pectobacterium carotovorum WPP14

Annotation: lipopolysaccharide assembly protein LapB

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 50 100 150 200 250 300 350 389 signal peptide" amino acids 1 to 17 (17 residues), see Phobius details PF13176: TPR_7" amino acids 71 to 94 (24 residues), 17 bits, see alignment (E = 2.8e-06) amino acids 219 to 245 (27 residues), 19.4 bits, see alignment (E = 4.8e-07) PF13432: TPR_16" amino acids 113 to 171 (59 residues), 17.8 bits, see alignment E=2.2e-06 amino acids 185 to 244 (60 residues), 25.4 bits, see alignment E=9.1e-09 PF14559: TPR_19" amino acids 191 to 245 (55 residues), 31.1 bits, see alignment 1.3e-10 PF13181: TPR_8" amino acids 214 to 245 (32 residues), 17.9 bits, see alignment (E = 1.5e-06) PF13174: TPR_6" amino acids 219 to 243 (25 residues), 15.6 bits, see alignment (E = 1.1e-05) PF18073: Rubredoxin_2" amino acids 355 to 382 (28 residues), 40.7 bits, see alignment (E = 8.3e-14)

Best Hits

Swiss-Prot: 76% identical to LAPB_ECO57: Lipopolysaccharide assembly protein B (lapB) from Escherichia coli O157:H7

KEGG orthology group: None (inferred from 98% identity to pct:PC1_2367)

Predicted SEED Role

"Heat shock (predicted periplasmic) protein YciM, 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 (389 amino acids)

>HER17_RS09385 lipopolysaccharide assembly protein LapB (Pectobacterium carotovorum WPP14)
MLELLFLLLPVAAAYGWYMGRRSAQQDKEQESNRLSREYVTGVNFLLSNQQDKAVELFLD
MLKDDSNTFEAHLTLGNLFRSRGEVDRAIRIHQALTESASLTFEQRLLAVQQLGRDYMAA
GLYDRAEESFNQLVDEEDFRRSALQQLLQIHQATSDWPTAIDVAEKLVKMGKDQLRVDIA
HFYCELALLAMGSDDLDKALTLLKKGATADSQCARASIMMGRIYMAQQDYSRAVEALRQV
LDQDKELVSETLPMLQECYQHLDKPLDWANFLRRCVEENTGATAELMLVDILEREEGAEV
AQAYINRQLQRHPTMRVFHRLMDFHLHEAEDGRTKENLQGLRDMVGEQIRTKPRYSCRKC
GFTSQSLYWQCPSCRTWASVKPIRGLDGQ