Protein Info for GFF3044 in Variovorax sp. SCN45

Annotation: LPS-assembly protein LptD @ Organic solvent tolerance protein precursor

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 785 signal peptide" amino acids 1 to 17 (17 residues), see Phobius details PF19838: LptD_2" amino acids 207 to 371 (165 residues), 28.9 bits, see alignment E=4.8e-11 PF04453: LptD" amino acids 294 to 675 (382 residues), 284.2 bits, see alignment E=2.2e-88

Best Hits

KEGG orthology group: K04744, LPS-assembly protein (inferred from 49% identity to del:DelCs14_5912)

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 (785 amino acids)

>GFF3044 LPS-assembly protein LptD @ Organic solvent tolerance protein precursor (Variovorax sp. SCN45)
MALSLMLLLHARSAIAQETQESWIEAPMTLRRTPQLTETIPQAERGMRPSLVDGDRISGR
PDLEVVVEGDASLRRGDTHVTADRLTYQPPGDLATATGNVHLNQGGNVYEGPELHLKVES
FEGFFNHVRYTLLETGAHGEAERIDFVDPNVSVARHATYTTCLRENYAGWVPAWMLSAVT
LTTDNETNLATATDARISFLGLTTPSLPSVSFPLNNARQSGLLPPVIGFDTTNGFEYLQP
YYWNIAPNRDLTLYPEIMSNRGVNLGTEFRYLEKDYSGQIRVDEMPSDSLRDRNRWGLWA
KHDQKLDPKPFGLDSLTTSFNINRVSDDDYWRDFSHTPTLTSRQLTNEADLNWTKGDWSG
QARTLSYQTLQYAASPITPSYNRVPQVTANYNKYDWHGLDVSGTLDYTRFQVDSAYAPTL
NGIKQPDGERVVGNLQISRPWVAPGGFFIPKLLLHTASYQLASPLADGRTSITSVVPTVS
LDSGLVFERDTSLFGSAWRQTLEPRAFYVHTPYRDQSQLPVYDTAANDVSFATLYTENAF
SGNDRVSDTNTLTTGVTTRLIDPVTGAESARFGIAQRFRFSDQNVTLPGGTAVTDRSGDF
ILGGQVHWNPKWSIDGLAQYNMDTGKSTRDALTLRYTPAQYHTLTAAFRYQADSTTTAND
GTKTVDFNWQWPLSDLTGGLMGGKSAADPGRWYAVGRLSYSLHDRALSDSLVGAEYNACC
WVGRIVLERLVTGRATPDTRLMFQIQFNGFGNIGSNPTSTLLQNIQGYQPLNQSTQQPSR
FTNYD