Protein Info for GFF4142 in Xanthobacter sp. DMC5

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 846 signal peptide" amino acids 1 to 57 (57 residues), see Phobius details PF03968: LptD_N" amino acids 86 to 141 (56 residues), 22.9 bits, see alignment 8.7e-09 PF04453: LptD" amino acids 346 to 770 (425 residues), 241 bits, see alignment E=2.8e-75

Best Hits

KEGG orthology group: K04744, LPS-assembly protein (inferred from 81% identity to xau:Xaut_2836)

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 (846 amino acids)

>GFF4142 LPS-assembly protein LptD (Xanthobacter sp. DMC5)
MTVGHPPAVGMTARGLRAAARGTGGRASRRASSAAAFSLIFAGLVALLAPMGSARAQTQP
AASQNATTGGNLLSARQLDPNQKMLVTADQLEYDYQKDTVSAVGNVQIYYDGSTLEARRV
VLDRKANTLRAEGNARLKDKDGKIVTADTLQLTQDFKQGFIDSLRLDTPDNTHFAAVRAD
RTDGNITVFQNGIYTACEPCKDDPSKPPLWQIKAKKIIHNDDEKMVYYEDAWVEFFGLPV
AYFPYMSSPDPTVKRKTGFLMPEFFSSSQIGYGVSVPFFWNIAPDRDLTLTPAFLTQQGV
LMQAEWRQRLINGSYTIRAAGIVQQNPQDFITTSNGITEVLPGYREDRGAVESTGAFALN
KFWTFGWDGTVVSDRTFLRDYNLIPDATTTKTSTVYLTGQGDRSYFDLRGLYFLGLGVTD
DQARQPIVGTLNYDKVFNNALWGGEAGFKVNLTSLTRQQADFIGTSELTSAIGSVGVPTG
ACTLWSPNAKECLLRGAPGDYTRLSGDVYWKKTITDPLGQQWTPFVTARVDVASVNTSYL
PASYQFGPTFPGQNPLQSGSDDLIRAMPAVGLDYKYPFISAESWGTQTIEPRAQVIIRPN
ESNIGKFPNEDAQSLVFDDTNLFEINKYSGYDRVEGGSRLNLGVTYTAAINGAGLFTAVV
GQSYNLFGKNSYAYGDMANTGLESGLETSASDYIAKFGYSPTKYLEFVTRFRFDEQNFSM
QRFELQARAEIDRFNIAVTYGRYEAQPLLGYYDPREGIYTNASYKLNDNWAVRGAIRYDF
AAGEVDYTLVGLSYIDDCFTLALNYISDYTLNGPNAPPVTKVMFRIGLRTLGEGGFSTSF
GSSSSN