Protein Info for Shew_3403 in Shewanella loihica PV-4

Annotation: ABC-2 type 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 50 100 150 200 272 transmembrane" amino acids 20 to 39 (20 residues), see Phobius details amino acids 51 to 75 (25 residues), see Phobius details amino acids 86 to 103 (18 residues), see Phobius details amino acids 108 to 128 (21 residues), see Phobius details amino acids 140 to 162 (23 residues), see Phobius details amino acids 173 to 197 (25 residues), see Phobius details amino acids 246 to 267 (22 residues), see Phobius details PF12679: ABC2_membrane_2" amino acids 5 to 270 (266 residues), 136.6 bits, see alignment E=1.6e-43 PF12730: ABC2_membrane_4" amino acids 21 to 183 (163 residues), 36.1 bits, see alignment E=1e-12 PF13346: ABC2_membrane_5" amino acids 58 to 185 (128 residues), 28.3 bits, see alignment E=1.8e-10

Best Hits

Swiss-Prot: 53% identical to NOSY_PSEAE: Probable ABC transporter permease protein NosY (nosY) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K01992, ABC-2 type transport system permease protein (inferred from 100% identity to slo:Shew_3403)

Predicted SEED Role

"Nitrous oxide reductase maturation transmembrane protein NosY" in subsystem Denitrification

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 A3QIH1 at UniProt or InterPro

Protein Sequence (272 amino acids)

>Shew_3403 ABC-2 type transporter (RefSeq) (Shewanella loihica PV-4)
MNAILAVAIKEFQDGLRNRWLISITLIFAVLSLGLSYYGSVASGQLGTASLSSTIASLSS
LAVFLIPLIALLLAYDSFVGEQEAGTLLLLLTYPISHTQLLLGKFVGQGAIMALATSLGF
GSAALLLASQSDASAVLQSFGLFIATAILLGLCFISIAYVISLSVSEKSKAAGLALMLWF
FFVLVFDLALLAVLVGIEEGLSQQQLVQLMMLNPADLFRLVNLASLDTKDINGVLAVAIN
SSMSAGSLFSLLLAWVFAPLSLAALIFNRKTL