Protein Info for HSERO_RS07190 in Herbaspirillum seropedicae SmR1

Annotation: ligand-gated channel

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 50 100 150 200 250 300 350 400 450 500 550 600 650 714 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details PF07715: Plug" amino acids 74 to 169 (96 residues), 70.3 bits, see alignment E=2e-23 TIGR01783: TonB-dependent siderophore receptor" amino acids 76 to 714 (639 residues), 277.1 bits, see alignment E=1.8e-86 PF00593: TonB_dep_Rec" amino acids 282 to 683 (402 residues), 181.6 bits, see alignment E=5.3e-57

Best Hits

KEGG orthology group: K02014, iron complex outermembrane recepter protein (inferred from 100% identity to hse:Hsero_1430)

Predicted SEED Role

"Ferrichrome-iron receptor" in subsystem Iron acquisition in Vibrio or Transport of Iron

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 D8IPC6 at UniProt or InterPro

Protein Sequence (714 amino acids)

>HSERO_RS07190 ligand-gated channel (Herbaspirillum seropedicae SmR1)
MQSPIPCACVRRLPATLCLAFLALPAYAAERDGGNEGEPSGESSLPVVEVRDQRRSPDPR
ARRVGTATRSAADPMEVPQSIQSVSVEQVSVYGARTLAGALLGVPGISSISDTRFDAFRI
RGFSSANDLLLDGMRDDPQYVRGLGNIERVEVLRGPASVLYGRGSGGGVINRISKQPGQD
VASQATLSLGSAGLLGAALDWNRPLAPHWALRINTGREHAGSFRDTVNGTRQYFAPALKW
ESGRDSWLLQAEYDEYERVPDRGIPGRAIATANGEPTAYALPSAGHEQFFGAAGRDVIRD
IHMSLRSTLTRALSQDWTLRHALALMDLNSNFDNTFVTQAYQSAPLDLDRVQRTRYQQNL
QQRSVQNNLELLGQLGAHDLLLGVEHSWQKREPRLWSVAAPAVSAVTPENTRNGDDPTTP
FQMNYHKASNLGLYVQDKITLAAHWKMLAGLRWDRFEVDSRNRRNGVRSERTAHALSPRI
GVVWEALPGQHAYLSWSKNFAPVGGDVIGITPDARGNFNDLKPQFSRQVEAGIKSEWLDR
RLSTTLAWFQLELFNRNVADPVRPGFFEQSGLERNRGIELSVEGELAAPWFVRAGWAIQS
AKIVQAEPKFVGKRASGVSGRGGSLFLSYAPTLGWFAELGLTVEGARYADRDNLLELPAY
TRWDGKMGYRLDEAEFTLAVTNLANRRYYESATGLSQVRPGAPRALLLTAAYKF