Protein Info for PS417_25795 in Pseudomonas simiae WCS417

Annotation: LPS biosynthesis protein

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 936 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details PF03968: LptD_N" amino acids 156 to 288 (133 residues), 42.2 bits, see alignment E=1.3e-14 PF19838: LptD_2" amino acids 293 to 691 (399 residues), 49.1 bits, see alignment E=5.4e-17 PF04453: LptD" amino acids 400 to 842 (443 residues), 380.1 bits, see alignment E=2.3e-117

Best Hits

Swiss-Prot: 79% identical to LPTD_PSEPF: LPS-assembly protein LptD (lptD) from Pseudomonas fluorescens (strain Pf0-1)

KEGG orthology group: K04744, LPS-assembly protein (inferred from 98% identity to pfs:PFLU5575)

Predicted SEED Role

"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

See U1UZ88 at UniProt or InterPro

Protein Sequence (936 amino acids)

>PS417_25795 LPS biosynthesis protein (Pseudomonas simiae WCS417)
MALKSPAFRRKFPLLVTGSLLALQPFATSFVVAAEQYDCSVSASGAWDCAPKTAAAPLPP
RPVHDGAAISSANSTAQTDAGGKAEAEPKTALVTESKGRGLRSRSADYSHLDWVPREKLT
AAQLAETGPYCGGAYIEPTRPGMNDKTNKSDAPTFIGAKASRYEQEQQVATLAGDVVMRQ
GSMQLESEEASLYQAENRGELNGKVRLRDNGALIVGDHAEVQLDTGAAQIDNAEYVLHKS
RIRGNALYAKRAENAIIRLKDGTYTTCEPDSNAWQLRGNNITLNPATGFGTATNATLRIK
NIPILYTPYIYFPIDDRRQSGFLPPSFSTGSETGFTLVTPYYFNLAPNYDATLYPQYMTK
RGLLMEGEFRYLTKSSEGQFGGAYLNDDNDERSKQTDYEKTRYMLNWQHRGGLDSRLATQ
VDYTRISDPYYFQDLKSFQEGVESRDALNQQGSVTYRGDSYQARLNVQAYQLATISQITP
YDRLPQITFNGALPYHPGGLNFTYETEAVRFERSLEKGTFTDQDGLVSPRLDTYVTGLTR
ANGTRLNVAPAVDYPMNWTYGFITPKLKYVYTKYDLDLDSIGKNQIIAQQAAATAANPYA
GGDFKSSQDRAVPVASVDSGLYFDRNTNWFGKDYRQTLEPRAFYLYVPNKDQSDIPVFDT
SEYSFSYASLFRDNRFSGSDRIGDENKLSLGLTSRWIEENGFERQRVSVGQAVYFKDREV
QLPGILAADRADAQSDVSPVALDYEFRFNRDWRATADYNWDTEEHSPRSGSAMLHYQPED
NPNKIINVGYRYRNDQVVYNQLTGKWQFGGDYGQPGDPNFVKDYYKIQQHDFSMMWPIIP
QWNLITRWQYDYARNRTLEAFGGFEYDNCCWKLRVINRYWVSNDEYSQIAPLNEKGDHGL
FFQIVLKGLGGLTGAKVESFLDKGIEGYREREDQAF