Protein Info for Atu1272 in Agrobacterium fabrum C58
Annotation: NADH ubiquinone oxidoreductase chain D
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: 100% identical to NUOD_AGRFC: NADH-quinone oxidoreductase subunit D (nuoD) from Agrobacterium fabrum (strain C58 / ATCC 33970)
KEGG orthology group: K00333, NADH dehydrogenase I subunit D [EC: 1.6.5.3] (inferred from 100% identity to atu:Atu1272)MetaCyc: 82% identical to MbhL (Pyrococcus furiosus)
Ferredoxin hydrogenase. [EC: 1.12.7.2]
Predicted SEED Role
"NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3)" in subsystem Respiratory Complex I (EC 1.6.5.3)
MetaCyc Pathways
- NADH to cytochrome bd oxidase electron transfer I (2/2 steps found)
- NADH to cytochrome bo oxidase electron transfer I (2/2 steps found)
- hydrogen production III (1/1 steps found)
- hydrogen production VIII (1/1 steps found)
- aerobic respiration I (cytochrome c) (3/4 steps found)
- aerobic respiration III (alternative oxidase pathway) (2/3 steps found)
- hydrogen production VI (1/2 steps found)
- superpathway of hydrogen production (1/2 steps found)
- NAD(P)/NADPH interconversion (3/6 steps found)
- superpathway of photosynthetic hydrogen production (3/6 steps found)
- Fe(II) oxidation (2/6 steps found)
- superpathway of fermentation (Chlamydomonas reinhardtii) (3/9 steps found)
- L-glutamate degradation VII (to butanoate) (4/12 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 1.6.5.3
Use Curated BLAST to search for 1.12.7.2 or 1.6.5.3
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 A9CJA9 at UniProt or InterPro
Protein Sequence (396 amino acids)
>Atu1272 NADH ubiquinone oxidoreductase chain D (Agrobacterium fabrum C58) MTEHNVRNFTINFGPEHPSAHGVLRLVLELDGEIVERVDPHIGLLHRGTEKLIETKTYLQ AVPYFDRLDYVAPMNQEHAFALAVEKLLGLEIPMRGQLIRVLYSEIGRILSHIMNVTTQA MDVGAMTPPVWGFEEREKLMVFYERACGARMHSAYVRPGGVHQDLPPELVDDIGKWCDPF LTVLDNIEGLLTDNRIYKQRNVDIGVVSLEDAFAWGFTGVMVRGSGAAWDLRRSQPYECY SDLEFDIPVGKNGDCYDRYLIRMQEMRESVKIMKQCVDRLSGKHRIGPVSSLDGKVVPPK RGEMKRSMEALIHHFKLYTEGYHVPAGEVYAAVEAPKGEFGVYVVADGSNKPYRCKIRAP GYAHLQAMDFLCKGHQLADVTAVLGSLDIVFGEVDR