Protein Info for DDA3937_RS02000 in Dickeya dadantii 3937

Annotation: LPS export ABC transporter permease LptF

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 50 100 150 200 250 300 372 transmembrane" amino acids 15 to 35 (21 residues), see Phobius details amino acids 52 to 76 (25 residues), see Phobius details amino acids 97 to 120 (24 residues), see Phobius details amino acids 266 to 289 (24 residues), see Phobius details amino acids 296 to 316 (21 residues), see Phobius details amino acids 328 to 348 (21 residues), see Phobius details TIGR04407: LPS export ABC transporter permease LptF" amino acids 2 to 348 (347 residues), 382.9 bits, see alignment E=5.4e-119 PF03739: LptF_LptG" amino acids 5 to 345 (341 residues), 259.1 bits, see alignment E=3e-81

Best Hits

Swiss-Prot: 76% identical to LPTF_SHIFL: Lipopolysaccharide export system permease protein LptF (lptF) from Shigella flexneri

KEGG orthology group: K07091, lipopolysaccharide export system permease protein (inferred from 100% identity to ddd:Dda3937_01299)

MetaCyc: 76% identical to lipopolysaccharide ABC transporter permease (Salmonella enterica enterica serovar Typhimurium str. LT2)
RXN1R65-51 [EC: 7.5.2.5]

Predicted SEED Role

"FIG000988: Predicted permease"

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.5.2.5

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 E0SIA8 at UniProt or InterPro

Protein Sequence (372 amino acids)

>DDA3937_RS02000 LPS export ABC transporter permease LptF (Dickeya dadantii 3937)
MIIIRYLVRETFKSQVAILFILLLIFFCQKLVRILGAAVDGDIPTNLVLSLLGLGVPAMA
QLILPLSLFLGLLMTFGRLYAESEITVMHACGLSKGVLLKAALLLSLLTASFAAANVLWL
SPWSSRHQDEVLAEARANPGMASLAEGQFQQTQDGNSVLFVGKANGSDFERVFLAQLHPR
ENTRPSVVVADRGTVTARGDGSQVVTLSKGTRYEGTAMLRDFRITDFIDYQAIIGYQPVA
LDPNNVDQMDMQTLWRSSDIAARAEFHWRLTLILSVLVMAIMVVPLSVVNPRQGRVLSML
PAMLLYLVFFLLQSSLRSNAGKGKLDPLVWMWLTNLGYFALAIALNLWDSLPARKIRASL
KSANGQKTKGAA