Protein Info for GFF5199 in Variovorax sp. SCN45

Annotation: Galactofuranose ABC transporter, permease protein 2

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 50 100 150 200 250 300 345 transmembrane" amino acids 32 to 54 (23 residues), see Phobius details amino acids 62 to 106 (45 residues), see Phobius details amino acids 114 to 136 (23 residues), see Phobius details amino acids 143 to 163 (21 residues), see Phobius details amino acids 183 to 207 (25 residues), see Phobius details amino acids 238 to 260 (23 residues), see Phobius details amino acids 265 to 285 (21 residues), see Phobius details amino acids 289 to 311 (23 residues), see Phobius details amino acids 318 to 338 (21 residues), see Phobius details PF02653: BPD_transp_2" amino acids 62 to 330 (269 residues), 130 bits, see alignment E=4.7e-42

Best Hits

Swiss-Prot: 56% identical to YJFF_ECOLI: Inner membrane ABC transporter permease protein YjfF (yjfF) from Escherichia coli (strain K12)

KEGG orthology group: K02057, simple sugar transport system permease protein (inferred from 94% identity to vap:Vapar_1050)

MetaCyc: 56% identical to galactofuranose ABC transporter putative membrane subunit YjtF (Escherichia coli K-12 substr. MG1655)
TRANS-RXN0-491 [EC: 7.5.2.9]; 7.5.2.9 [EC: 7.5.2.9]

Predicted SEED Role

"Ribose ABC transport system, permease protein RbsC (TC 3.A.1.2.1)" in subsystem D-ribose utilization (TC 3.A.1.2.1)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.5.2.9

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 (345 amino acids)

>GFF5199 Galactofuranose ABC transporter, permease protein 2 (Variovorax sp. SCN45)
MSAVIDAAPSPQPSPASGRRGAGSKRGLNPKYLPLAATISLFVLVATLGSVFYDGFFSAQ
VFLNLLIDNAFLIVVAVGMTFVILSGGIDLSVGSVIALTTMVSASLVEKHGWSPGVVIPL
VLVMGTAFGAFMGLLIERYRLQPFIVTLAGMFLARGLCYLISIDSISITNEFYSEVSQIR
IPIWGEASVSISAVIAVAVLLAAVFIAHCTPFGRAVYAIGGSEHSAVLMGLPVRRTLIGV
YTLSGFCSALAGVIFTFYMLSGYGLHAVGLELDAIAAVVIGGTLLTGGVGYVAGTLFGVL
MLGIIQTLISFDGTLSSWWTRIVVGALLFVFCLLQRFFTSRAPRR