Protein Info for GFF3352 in Sphingobium sp. HT1-2

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 50 100 150 200 250 300 350 400 450 500 550 600 650 722 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details PF07715: Plug" amino acids 72 to 158 (87 residues), 51.2 bits, see alignment E=1.7e-17 PF00593: TonB_dep_Rec_b-barrel" amino acids 228 to 681 (454 residues), 134.9 bits, see alignment E=7.6e-43

Best Hits

KEGG orthology group: K02014, iron complex outermembrane recepter protein (inferred from 60% identity to swi:Swit_3750)

Predicted SEED Role

"TonB dependent receptor"

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 (722 amino acids)

>GFF3352 TonB-dependent receptor (Sphingobium sp. HT1-2)
MKTSLVAIAASLALLPTPVAAQDSLPADTPIADDAAPPLQTRFDGAALDIGSAPLNGARL
GSGTLRRRALSRSDTAAILASLPGVAANGGGGFSSMPALRGLTEQRIRITLDGIPVDIAC
PNDMNTPLSYTDPQTVGSIAVVPGVSPVSMGGDNIAGIIAVESAMPRFAVDGGTLVTGEA
SSFYRSNGDAFGGGVTLTVAGKRISATYSGSYTQSDNYDGGGNRGVVRSTEYAKTDHQLA
LAAQTRLGLFELKGGYHFSPYEGFPNQYMDMTSNKSWFLNGRYRGTFAWGDVDASVGYRD
TAHRMDFLADKQPGSMPMNTQIHSFTSAVKLSLPVGPHDTLRVGGDYQHQGMDDWWPPVA
GSMMMGPNPYININDGRRDRLGLFGEWESHWTDRLSTSIGARFDRVRMNTGDVQPYGTGM
MNMADAMAAEAFNARSHRRTDNNWSATALASWQASDLLAFELGYAHKSRAPNLYERYAWG
RGAMASQMIGWYGDGNGYVGNLDLRSEQADTVSAALRLTAKGGATLKISPYYTRVNDYID
AVHLQDLTDMMGMPSGFVQLQFANQDAEFYGVDVSASVPLQRSAHVETSFTASAAYVHGR
NLSDGGPLYRQMPLDLKMGLAHRIDALELGADVEFVADKNRVDATRNEPRTRGYALVDLR
AGYTLPLWAKGLKLTVEAKNLFDAGYDLPLGGMSLGDYGATGVLRPVPGMGRSINLGLST
RF