Protein Info for PP_0404 in Pseudomonas putida KT2440

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 940 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details PF03968: LptD_N" amino acids 150 to 283 (134 residues), 43.6 bits, see alignment E=4.6e-15 PF19838: LptD_2" amino acids 289 to 405 (117 residues), 46.2 bits, see alignment E=4.1e-16 PF04453: LptD" amino acids 395 to 846 (452 residues), 384.5 bits, see alignment E=1.1e-118

Best Hits

Swiss-Prot: 95% identical to LPTD_PSEP1: LPS-assembly protein LptD (lptD) from Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)

KEGG orthology group: K04744, LPS-assembly protein (inferred from 87% identity to pen:PSEEN0431)

Predicted SEED Role

No annotation

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 A0A140FVZ0 at UniProt or InterPro

Protein Sequence (940 amino acids)

>PP_0404 LPS-assembly protein LptD (Pseudomonas putida KT2440)
MALKSPAFRRKFPLLVTGGLLALQPLATSYVVAAEQFDCQVSAAGGWDCKPKTPVNNLPP
RPVHEGAAVSSGTEAAGEAETADRPVLVTEAKGRGLKSRSEDYSHLDWVPREKLTAAQLA
ETGPYCGGAYIEPTRPGMADTTPKDESPTYINAKVSKYQQEQQIATLAGDVVMRQGSMQA
EADEANLYQAENRGELKGNVKIRDNGSLVVGDEAQIQLDTGEAQVDNAEYVMHKSHIRGS
ALYAKRGENAIIRLKDGTYTTCEPGSNAWQLKGNNITLNPATGFGTATNVTLRVKDFPVF
YTPYIYFPIDDRRQSGFLPPSFSTSSDTGFMLVTPYYFNLAPNYDATLYPRYMAKRGLLM
EGEFRYLTPSSEGQFGGAYLNDKNDDRKDQTDYKDQRWMVNWQHKGGLDERLMTEVDYTD
ISDPFYFQDLESDQIGVESRDLLNQQGALTYRGDSYTARLNVHAYEMATISQITPYDRLP
QLTLNGTLPFQPGGLNLGYETEAVRFDRDLKDSAVFDEDGNPDLTAGLKPDGIGGRRLDE
NIFGVARANGTRLNVAPSISLPMEASYGYITPKLKYMYTHYDLDLDSKGKGDIAGANADT
LDVFGDYKSNLNRDIPIFSVDSGLYFDRNTSLFGTNYRQTLEPRMFYLYVPYKDQMDIPL
FDTGETLFSYDSLFRDNRFSGTDRIGDENKLSLGVTTRWIEENGFERQNFSIGQAYYFKD
RKVQLPGIDYRTRKDAQSDVSPYALVYNYYFNRDWRFNSDFNWDPDSRSTRSGSAMFHYQ
PEDNPNKIVNLGYRYRNDTIAYDSTTGTWKVGGGDYGTPGDPNYIKDYYKIQQHDFSVIW
PIVPQWNVIARWQHDYNRNRTLEAMGGFEYDNCCWKLRLINRYWIDYDDFSQALPQNEKG
DHGVFLQIVLKGLGGVVGNKVESFLDQGIQGYREREDQAY