Protein Info for ABID97_RS02535 in Variovorax sp. OAS795

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 860 signal peptide" amino acids 1 to 32 (32 residues), see Phobius details PF19838: LptD_2" amino acids 206 to 371 (166 residues), 41 bits, see alignment E=1.1e-14 PF04453: LptD" amino acids 338 to 749 (412 residues), 287.9 bits, see alignment E=1.5e-89

Best Hits

KEGG orthology group: K04744, LPS-assembly protein (inferred from 92% identity to vap:Vapar_5275)

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)

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 (860 amino acids)

>ABID97_RS02535 LPS-assembly protein LptD (Variovorax sp. OAS795)
MSRRVAARRSGPPLPLAVLSLALLHAHGASAQPAGGLDGPLVLKRTPQLTETLPANERGQ
LPSLITGDRLSGRQDLETVVEGNATLRRGEVAITADRLEYYQPDDRAKARGNVRVNQAGN
VYEGPELELKLETFEGFFNNVRYSFLANGGHGEAQRIDFVDSKVSVARSATYTTCRREDY
PGWMPAWLLTAATMTTDTEENVGVATDARLSFMGISTPPIPSVSFPLSNERKSGLLPPTV
GVDNTNGIEISQPYYWNIAPNRDATITPTLMSKRGLNLGTEFRYLEKEYSGSIRLDLMGS
DRLVGQRYNEARSAQLQQLANGEIQASALTFGPPPSSKRWGIWANHHQDFDAKALGLDSL
SANININRVSDDDYWRDFTRTPTLSQRQLPNEAALNWGKGDWSGMVRTMRYQTLQYSLAP
LVPSYDRMPQITANYAKYDWHGFDVGLNLDYTRFRVNTILSGQPGFDATQQSQPDGDRAF
AVASISRPFITPSSFVIPKLQLNAASYNYYLPQSDIPKLTVNGITYVNGVPYNGNSLYFF
PTSSNRTIPTFSLDSGLIFERDANYFGRAFRQTLEPRAYYVYTPYRNQSMLPNYDSAAND
FSFATIYTENAFSGNDRISDTNTLTLGVTSRLIDPDTGAEAARFGIAQRLRFSDQKVTLP
GGVPVTDRASDLLVGAQINWTPKWSLDTVVQYNPDTRKSERAAISARYNPEPYHNLSAAF
RYQAPTTPTATDGNKSFDVGWQWPLNDLWGDKGKDLGPGKGQGGGRWYAVGRLNYSLQDR
KLTDGVLGFEYDGCCWIGRVVLQRITTGQVTANTRIMFQLEFVGFSSIGSSPMQALRQNI
QRYQPLRQPTEGPSRFTNYD