Protein Info for GFF3458 in Variovorax sp. SCN45

Annotation: Rubisco activation protein CbbQ

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 PF07728: AAA_5" amino acids 39 to 173 (135 residues), 118.9 bits, see alignment E=1.7e-38 PF08406: CbbQ_C" amino acids 186 to 269 (84 residues), 105.8 bits, see alignment E=1.1e-34

Best Hits

Swiss-Prot: 65% identical to CBBQ_HYDTE: Protein CbbQ (cbbQ) from Hydrogenophilus thermoluteolus

KEGG orthology group: K04748, nitric oxide reductase NorQ protein (inferred from 93% identity to vei:Veis_4904)

Predicted SEED Role

"Rubisco activation protein CbbQ" 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)

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 (272 amino acids)

>GFF3458 Rubisco activation protein CbbQ (Variovorax sp. SCN45)
MNAAIPDPLAAYRIESEPFYRPAGNEVALYRQAYRHRMPLILKGPTGCGKTRFVEHMAWS
LGRPLVTLACNEDMTASDLVGRYLLDANGTAWHDGPLTLAVRHGGICYLDEVVEARQDTT
VVIHPLTDARRILPLDKKGELVHAHPDFQLVVSYNPGYQSSAKDMKPSTRQRFAALEFDY
PGSALEAEIVAHEAGVDTDLAAKLVAIARCSRELKHRGLDEGVSTRMLIYAGVLIRDGVT
PRESCEMTMTRALTDDPDMASALQGFVEAQFG