Protein Info for Dshi_0506 in Dinoroseobacter shibae DFL-12

Annotation: formate dehydrogenase, gamma subunit (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 50 100 150 200 250 300 342 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details transmembrane" amino acids 89 to 109 (21 residues), see Phobius details amino acids 133 to 154 (22 residues), see Phobius details amino acids 181 to 198 (18 residues), see Phobius details amino acids 235 to 259 (25 residues), see Phobius details amino acids 268 to 290 (23 residues), see Phobius details TIGR01583: formate dehydrogenase, gamma subunit" amino acids 123 to 325 (203 residues), 144.3 bits, see alignment E=2.4e-46 PF01292: Ni_hydr_CYTB" amino acids 126 to 305 (180 residues), 75 bits, see alignment E=3.3e-25

Best Hits

KEGG orthology group: K00127, formate dehydrogenase, gamma subunit [EC: 1.2.1.2] (inferred from 100% identity to dsh:Dshi_0506)

Predicted SEED Role

"Formate dehydrogenase -O, gamma subunit (EC 1.2.1.2)" in subsystem Anaerobic respiratory reductases or Formate hydrogenase (EC 1.2.1.2)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.2.1.2

Use Curated BLAST to search for 1.2.1.2

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 A8LNU6 at UniProt or InterPro

Protein Sequence (342 amino acids)

>Dshi_0506 formate dehydrogenase, gamma subunit (RefSeq) (Dinoroseobacter shibae DFL-12)
MNMKTLTQRFVAVFGVLVVLGIMGGTLHAPAQAQQINPTAEAVTEDSLFEALRDDQMVAG
RVSIPDELSSGLIKPGNASWADTHTSTVRILSILGVVGALVVLTGFYLIRGKIMVDSKLS
GVRILRFTAVERFAHWLMAGSFIVLALTGLNLVLGRTMVLPWLGETAFSTISVWGKIAHN
YVGWAFMLGLIMSFAVWISHNIPDKVDAEWVAKGGGLLKKGVHPPAKKFNAGQKVIFWST
TLGGAALSFTGFMMLFPALAGTQADWQFYQLIHGIVAAVLSFIIIAHIYIGSIGMEGAFD
AMGTGEVDLNWAKEHHSLWVEEVQKGEAAQDGGPAKTPHPAE