Protein Info for GFF1975 in Xanthobacter sp. DMC5

Annotation: Bicarbonate transport system permease protein CmpB

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 50 100 150 200 250 297 transmembrane" amino acids 40 to 63 (24 residues), see Phobius details amino acids 110 to 132 (23 residues), see Phobius details amino acids 141 to 161 (21 residues), see Phobius details amino acids 167 to 188 (22 residues), see Phobius details amino acids 209 to 228 (20 residues), see Phobius details amino acids 234 to 254 (21 residues), see Phobius details amino acids 265 to 290 (26 residues), see Phobius details TIGR01183: nitrate ABC transporter, permease protein" amino acids 85 to 284 (200 residues), 315.4 bits, see alignment E=7.4e-99 PF00528: BPD_transp_1" amino acids 121 to 284 (164 residues), 102.3 bits, see alignment E=1.4e-33

Best Hits

Swiss-Prot: 62% identical to NRTB_SYNY3: Nitrate import permease protein NrtB (nrtB) from Synechocystis sp. (strain PCC 6803 / Kazusa)

KEGG orthology group: K02050, sulfonate/nitrate/taurine transport system permease protein (inferred from 89% identity to xau:Xaut_2503)

Predicted SEED Role

"Bicarbonate transport system permease protein" in subsystem CO2 uptake, carboxysome

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 (297 amino acids)

>GFF1975 Bicarbonate transport system permease protein CmpB (Xanthobacter sp. DMC5)
MSVTALKEPPREVRRSGTAEVVKMKPAAVRRPSRWPGYAKSVAATVIPPLVMVVLLGLLW
EILCSGAGATLPAPSRIWADSKDLILDPFFVAGPQDIGLGWRVLVSLQRVAVGFGLAAVA
GIALGAVVGQSVWAMRGLDPIFQVLRTVPPLAWLPIALAAFRDSNPSAIFVIFITAIWPI
IINTAVGIRNIPQDYRNVAQVLRLNPLEFFWKIMLPSAAPYIFTGLRIGIGLSWLAIVAA
EMLTGGVGIGFFIWDAWNSSRLPDIIVALVYIGLVGFVLDRLVAGIGSFVTRGTQAS