Protein Info for CSW01_02340 in Vibrio cholerae E7946 ATCC 55056

Annotation: LPS assembly protein LptD

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 787 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details PF03968: LptD_N" amino acids 61 to 193 (133 residues), 51 bits, see alignment E=2.5e-17 PF04453: LptD" amino acids 301 to 688 (388 residues), 411 bits, see alignment E=9.2e-127

Best Hits

Swiss-Prot: 100% identical to LPTD_VIBCH: LPS-assembly protein LptD (lptD) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K04744, LPS-assembly protein (inferred from 100% identity to vcj:VCD_001160)

Predicted SEED Role

"Outer membrane protein Imp, required for envelope biogenesis / Organic solvent tolerance protein 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 (787 amino acids)

>CSW01_02340 LPS assembly protein LptD (Vibrio cholerae E7946 ATCC 55056)
MYNPMSCFSRTFLAASISAALFAPQIQAEASVDDNRAQLPNGEQCLVNQPEPTNPGQQPI
NVEADKLEAINGQKATYSGNVVVVQGKKRIAADNVTLHQQENVVVAEGNVQFSDGEIKTH
STKATNHLNTDEMTLENTRYQFLCEPGRGEAVYVSKTGKAVYEIEDGSITSCPDGDNAWR
MRASSIDVDQNEEIATFYNPRLEVQNVPVFYLPYLTVPIGDTRKTGFLYPTASYGSRNGY
SFEVPIYWNLAPQYDLETTFNYMQKRGTQLNSVFRYLTDFGAGQIKSEYLADDQLHTELG
DRWAFQYEHNGIFQQAWKFEIDYSKVSDINYFSDLDSGVGNREDGQLIQEGRATYRSDNW
DSALLVRDFQLLTKDTTSTNLPYRLMPQLSYNYYAPETMKYLDLDLVSHVSRFETDARGK
PSATRVHIEPGLKIPFSNTWGNWTTEARVLGTYYQQDLDKTTDAKLEESVTRVIPEIRSV
AGIVLERDTVLLDDYTQTLEPKIQYLYVPEKYQDNIGLYDSTLLQTDYYGLFRSRKYSGV
DRIESANQVSYGASTRFFDSNYKERLNIAFGQIFYLDSKLNPSNKNPDSTSDKTSYSAWA
VEMDFNFADYLFYHGGIQYDIDSQAVQLGNSTLEYRVASGYIQANYRYVAKDYIRNTVGD
SITNIDDITRDGISQAGILAGYQLSRKWSASGQYYYDLTTDEALEWLANLTYTSDCWYVG
FTYSNQLKSWNGNFVTDPYATPIYENNFSFNIGIIGFGTSIGAGSSMTGVDSAGNSLGYG
RPFFLNN