Protein Info for GFF4540 in Sphingobium sp. HT1-2

Annotation: Outer membrane beta-barrel assembly protein BamB

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 50 100 150 200 250 300 350 400 449 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details PF13360: PQQ_2" amino acids 99 to 158 (60 residues), 28.6 bits, see alignment E=1.7e-10 amino acids 139 to 368 (230 residues), 175.5 bits, see alignment E=2.2e-55 PF13570: PQQ_3" amino acids 109 to 142 (34 residues), 18.6 bits, see alignment 3e-07 amino acids 193 to 227 (35 residues), 22.5 bits, see alignment 1.8e-08 amino acids 325 to 362 (38 residues), 19.8 bits, see alignment 1.3e-07

Best Hits

KEGG orthology group: None (inferred from 83% identity to sch:Sphch_0056)

Predicted SEED Role

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

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein 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 (449 amino acids)

>GFF4540 Outer membrane beta-barrel assembly protein BamB (Sphingobium sp. HT1-2)
MAKHSITKFGPMGRTLTTVALVAMLAGCGVVGGKKGGPKTPVVGNRTSILSNEQGIEVDP
TLADVPVALPESYANDQWSQPGGDPSKAMGHLALGAAPQQAWTASIEGSTPQARLASAPV
VSGGKLFVIDAGAHVIAMDANTGQKLWQTSLPAEGNGRALFGGGVSVLGDKLFASTGVGD
VVSMNVADGSIGWKVHPGGPLRGAPTLENGHVYVMGQDNQIFALNQSDGATQWTDSGTLQ
VTGIFGVAAPAAAQGTVIAGYSSGEINAYRYENGRTLWGDALSRTSISTAVASLTDIDAD
PVIDRGRVFAIGQGGRMASYELTSGQRLWEINIAGISTPWIAGEWVFAVTSDAKLLCVAR
ATGKIRWISQLRRWQKEKKKDKAIRWTGPVLAGGRLILVSTHGDLNYVDPATGTIQQAVD
MNKSMSLSPVVANNMLYILADDGKLTALR