Protein Info for GFF467 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: type 1 fimbriae anchoring protein FimD

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 842 signal peptide" amino acids 1 to 33 (33 residues), see Phobius details PF13954: PapC_N" amino acids 34 to 187 (154 residues), 142 bits, see alignment E=2.1e-45 PF00577: Usher" amino acids 208 to 751 (544 residues), 727.4 bits, see alignment E=2.1e-222 PF13953: PapC_C" amino acids 760 to 827 (68 residues), 85.5 bits, see alignment E=2.6e-28

Best Hits

Swiss-Prot: 100% identical to LPFC_SALTY: Outer membrane usher protein LpfC (lpfC) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K07347, outer membrane usher protein (inferred from 100% identity to see:SNSL254_A3916)

Predicted SEED Role

"type 1 fimbriae anchoring protein FimD"

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 (842 amino acids)

>GFF467 type 1 fimbriae anchoring protein FimD (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MTWTHLPLGNKTSRFTQSALALMIAGTLPAYAGTFNPRFLEDVPGIDQHVDLSMYESNKA
EHLPGKYRVSVVVNEKKMESRTLEFKAATEAQRAKMGESLVPCLSRVQLEDMGVRIDSFP
ALKMAPPEACVAFDDIIPQAASHFDFADQTLIMSFPQAAMKQTARGTVPESQWDEGVNAL
LVDYNFSGSNASYDAHDSETSYNSDSYYLNLRSGMNLGAWRLRNYSTWTRNDGNNTWDNI
GTSLSRAIVPLKSQLTLGDTSTAGDIFDSVQMRGVQLTSDEEMLPDSQRGFAPVIRGIAK
SNAEVTVEQNNYVIYRTFVQPGAFEINDLYPTSNSGDLTVTIKESDGSEQKFVQPFSSVA
LLQREGHLKYSLSAGEYRAGNYNSAEPKFGQLDAMYGLPYGFTVYGGAIFSDDYYSLAGG
LGKNFGYIGAISIDVTQAKSKLANEENSEGQSYRFLYSKSFNSGTDFRLLGYKYSTSGYY
TFQEATDVRSDADSSYSQYHKRSQIQGNVTQQLGAWGSVYFNVTQQDYWNDEGKQRSLNA
GYNGRIGRVNYSVAYTWTKSPEWDESDRLLSFSMSIPLGRVWSNYHLTTDQHGRTNQQLG
VSGTALEDHNLNYSVQEGYGSNGVGNSGSVNLDYQGGVGSASLGYNYNRDGQQVNYGLRG
GVIAHSEGITLSQPLGESMAIISAPGARGAHVINNGGVEVDWMGNAVVPYLTPYRETEVS
LRSDSLNNQVDLDTASVNVVPTRGAIVRARFDTRVGYRVLMNLTQANGKAVPFGATATLL
DTTKESSSIVGEDGQLYISGMPEKGALQVNWGKDQAQQCRVAFTLPEQQDNTGVVMANAV
CR