Protein Info for Shew_2388 in Shewanella loihica PV-4

Annotation: formate/nitrite transporter (RefSeq)

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 50 100 150 200 250 300 350 400 450 508 transmembrane" amino acids 45 to 64 (20 residues), see Phobius details amino acids 81 to 106 (26 residues), see Phobius details amino acids 125 to 147 (23 residues), see Phobius details amino acids 168 to 189 (22 residues), see Phobius details amino acids 200 to 224 (25 residues), see Phobius details amino acids 263 to 285 (23 residues), see Phobius details TIGR04060: formate transporter FocA" amino acids 24 to 286 (263 residues), 402.6 bits, see alignment E=7.1e-125 PF01226: Form_Nir_trans" amino acids 25 to 284 (260 residues), 246.7 bits, see alignment E=2.3e-77 TIGR00790: formate/nitrite transporter" amino acids 36 to 285 (250 residues), 238.9 bits, see alignment E=5.8e-75 PF00571: CBS" amino acids 355 to 406 (52 residues), 33.5 bits, see alignment 4.5e-12

Best Hits

KEGG orthology group: None (inferred from 100% identity to slo:Shew_2388)

Predicted SEED Role

"Formate efflux transporter (TC 2.A.44 family)" in subsystem Fermentations: Mixed acid

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

See A3QFK6 at UniProt or InterPro

Protein Sequence (508 amino acids)

>Shew_2388 formate/nitrite transporter (RefSeq) (Shewanella loihica PV-4)
MTIPNLVPLAARRVEPAPSSEPSLCQRVATYGQEKVTKQAMQSIGQAMFAGAFIALAFVF
YLTVTTGASGDWGMVRLVGGLAFSLGLMLVVICGGELFTSSVLSSVAWAQKRVSTRELLA
CWGRVYLGNFCGAMIMLALILSAKMYLLDGGLWGLNALKVAQHKLHHSWGQAFALGILCN
MLVCLGVWMTFASKEALTKAILLMLPVAMFVSSGFEHSIANLFMVPLGIAIKQLAIWDWY
QIPGFTAEQFSDLTLLHFLTNNLIPVTAGNIVGGGLVVGLGYWWIDSSKAHVGPLAQVTS
MTVHLEPVLSRSDQSNRQDNGSELAANSISILSSKACRGETQMPKSIQKLNVSVLMEQTP
FTLAPELSVYEGLKQLNEKQLRGAPVVDAKQRLLGFVSQQDLLRSLWSEEFVRGISYKVA
DLMQTRVLTVTPDDAVADLIEVMVVDRDKLFPVSDMGVLTGHTYASYEERLRHASASKPS
CFPVVSEGKLVGVINRESIVAKVCAIYE