Protein Info for Shew_2195 in Shewanella loihica PV-4
Annotation: NADH dehydrogenase (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
Best Hits
Swiss-Prot: 58% identical to DHNA_ECOLI: NADH dehydrogenase (ndh) from Escherichia coli (strain K12)
KEGG orthology group: K03885, NADH dehydrogenase [EC: 1.6.99.3] (inferred from 100% identity to slo:Shew_2195)MetaCyc: 58% identical to NADH:quinone oxidoreductase II (Escherichia coli K-12 substr. MG1655)
RXN0-5330 [EC: 1.6.5.9]; 1.6.5.9 [EC: 1.6.5.9]; 1.16.1.- [EC: 1.6.5.9]
Predicted SEED Role
"NADH dehydrogenase (EC 1.6.99.3)" in subsystem Carboxysome or Respiratory dehydrogenases 1 (EC 1.6.99.3)
MetaCyc Pathways
- superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) (7/8 steps found)
- NADH to cytochrome bd oxidase electron transfer I (2/2 steps found)
- NADH to cytochrome bd oxidase electron transfer II (2/2 steps found)
- NADH to cytochrome bo oxidase electron transfer I (2/2 steps found)
- NADH to cytochrome bo oxidase electron transfer II (2/2 steps found)
- mitochondrial NADPH production (yeast) (4/5 steps found)
- aerobic respiration I (cytochrome c) (3/4 steps found)
- aerobic respiration II (cytochrome c) (yeast) (3/4 steps found)
- aerobic respiration III (alternative oxidase pathway) (2/3 steps found)
- NADH to cytochrome aa3 oxidase electron transfer (1/2 steps found)
- NADH to nitrate electron transfer (1/2 steps found)
- nitrate reduction VIIIb (dissimilatory) (1/2 steps found)
- Fe(II) oxidation (3/6 steps found)
- NAD(P)/NADPH interconversion (3/6 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 1.6.99.3
Use Curated BLAST to search for 1.6.5.9 or 1.6.99.3
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 A3QF13 at UniProt or InterPro
Protein Sequence (433 amino acids)
>Shew_2195 NADH dehydrogenase (RefSeq) (Shewanella loihica PV-4) MSAKIPRIVIVGGGAGGLGLATQLGHKLGKKQRAEILLIDKNRTHIWKPLLHEVATGSLD ADLDGVVYSAHAVKHGYQFQLGELTGLDLKGKRLQLGAISNDKSEALLPARELEYDTLVL AVGSVSNDFGTPGVKEHCFFLDSHHQANRFHNALLDSFTRMHQSEEQQKLNIAIVGGGAT GVELSAELYHVTDLLKSYGLNKMTADRLSITLIEAGPRILPALPERIAASATRELIKLGV SVRQSTRIEEATSKGFVTAGGELIAANLMLWAAGVKAPDFIKQIEGLNLNRANQILVRPT LQAQGHDDLYVIGDCCACEQADGSFVPPRAQSAHQMAQCVEHNILNELRGLGLTEYEYVD HGSLVNLSRFSTVGSLMGNLTKDSMFVEGKIARFMYISLYRMHQKAIHGLAKTIALWLVE KMMRVVRPRMKLH