Protein Info for GFF5299 in Variovorax sp. SCN45

Annotation: TonB-dependent receptor

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 50 100 150 200 250 300 350 400 450 500 550 600 650 711 signal peptide" amino acids 1 to 28 (28 residues), see Phobius details PF07715: Plug" amino acids 52 to 161 (110 residues), 71.3 bits, see alignment E=1.4e-23 PF00593: TonB_dep_Rec_b-barrel" amino acids 233 to 674 (442 residues), 179.2 bits, see alignment E=4.1e-56 PF14905: OMP_b-brl_3" amino acids 405 to 573 (169 residues), 28.8 bits, see alignment E=1e-10

Best Hits

Swiss-Prot: 54% identical to YNCD_ECOLI: Probable TonB-dependent receptor YncD (yncD) from Escherichia coli (strain K12)

KEGG orthology group: K02014, iron complex outermembrane recepter protein (inferred from 89% identity to vpe:Varpa_1211)

MetaCyc: 54% identical to pyrroloquinoline quinone outer membrane transporter (Escherichia coli K-12 substr. MG1655)
TRANS-RXN0-629

Predicted SEED Role

"Probable tonB-dependent receptor yncD 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 (711 amino acids)

>GFF5299 TonB-dependent receptor (Variovorax sp. SCN45)
MGAMNLSPVAAAAVACLLLHAVSPAHAQQAAAPGALREITVSTPRGEVAPFNVPGSVDRV
DGDEMRDSRLQVNLSESLGAVPGLQVQNRQNYAQDLQLSIRGFGARSTFGVRGVRLYVDG
IPATLPDGQGQTSNIDIGSVDRVEVFRGPFSALYGNSSGGVVQAFTASGEGAPRLAYSLA
GGSFGTWRQSLQLSGSQGAVDYMLDASRFHTDGWREHSAARRDIANGKLGIALDNGDKLT
LVMNSVRIDAQDPLGLTADQYALAPRAAPLATQYDTRKTVEQTQAGLLYERHIDATQALR
LMVYGGERKTTQYQAIPPSAQQNPLHAGGVIDLSRQYGGIDLRWSAALQLADRPLDVVAG
LGYDNLREKRRGYENYLGPLANPVLGVQGRLRRNELNTVWNLDPYAQATWRFAERWTLEA
GVRRSSVHFDSQDRYIVGANRDDSGSARYGKTLPVASLRYQATPDLALYGSVGRGFETPT
LNELSYRANGASGLNFALRPSVNDSLEVGAKARLAGGLLTAALFQTRTRDEIVTDTNIGG
RATFQNAGRTRRNGFELGWQHETADHWRTQLAYTWLDATYRDAFCSPSPCGTGNAVAAGN
RIPGIAKQSLFASLGWVPPEGWRAGAEVRALGRILANDVNTAVASGYAVAAVYAGYLKKW
ERWEFNAFARVDNLFDRRYVGSVIVNEGNSRFYEPALGRNWTVGLSGAYRF