Protein Info for GFF3940 in Variovorax sp. SCN45

Annotation: putative membrane protein

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 50 100 150 200 250 300 363 transmembrane" amino acids 21 to 41 (21 residues), see Phobius details amino acids 46 to 64 (19 residues), see Phobius details amino acids 84 to 108 (25 residues), see Phobius details amino acids 177 to 200 (24 residues), see Phobius details amino acids 221 to 250 (30 residues), see Phobius details amino acids 256 to 277 (22 residues), see Phobius details amino acids 283 to 304 (22 residues), see Phobius details amino acids 325 to 351 (27 residues), see Phobius details PF01594: AI-2E_transport" amino acids 32 to 359 (328 residues), 40.5 bits, see alignment E=1e-14

Best Hits

KEGG orthology group: None (inferred from 88% identity to vpe:Varpa_1620)

Predicted SEED Role

"membrane protein, putative"

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

Find the best match in UniProt

Protein Sequence (363 amino acids)

>GFF3940 putative membrane protein (Variovorax sp. SCN45)
MAKKPQPITPAVATAPLHRPTASRGVMIASYLLMLGALLLVMWEHLLPGLLCVCIGFLAT
RWFARVLTGGLQRIPPLGRRPERAIGWANVLAVILVLVGPIALLTVLLSQAREYIVDAPD
QYRELLDYTARTVLELRSKLPGEIAAYLPEGAAEIQRVIANYLRAQAGSLAMAGRAWLHG
LLFSYVGLIVGALAAVAHAPLRRLPLADQLHQRVQTFGEAFGQIVAAQFWIAAFNTLLTA
IFLLFVMPLWGAHLPYTPALITLTFLAGLVPIVGNLVCNSVITLVGLSVSPVTAAACLIF
LIVIHKAEYVINAKVVGARTQMSVWELLAVMFVAEAVFGPAGLVAAPLYYAYLKKELQAA
ALV