Protein Info for PP_0626 in Pseudomonas putida KT2440

Annotation: NADH dehydrogenase

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

• PF07992: Pyr_redox_2
  • amino acids 4 to 336 (333 residues), 187.3 bits, E=6.6e-59
• PF00070: Pyr_redox
  • amino acids 169 to 255 (87 residues), 42.9 bits, E=8.8e-15

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 ppg:PputGB1_0672)

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)
• aerobic respiration III (alternative oxidase pathway) (3/3 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)
• NADH to cytochrome aa₃ oxidase electron transfer (1/2 steps found)
• NADH to cytochrome bd oxidase electron transfer I (1/2 steps found)
• NADH to cytochrome bd oxidase electron transfer II (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

• Oxidative phosphorylation

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

See Q88Q70 at UniProt or InterPro

Protein Sequence (431 amino acids)

>PP_0626 NADH dehydrogenase (Pseudomonas putida KT2440)
MTHRIVIVGGGAGGLELATRLGKSLGKRKQAEITLVDTNLTHIWKPLLHEVAAGSLNSSE
DELNYVAQAKWNHFNFQLGRMSGLDREGKQIQLAATLDEEGRELLPARTLGYDTLVIAVG
SNTNDFGTLGAAQHCLFLDTRKQAERFHQQLLNHYLRAHAGDVASEKISVAIVGAGATGV
ELAAELHHAAHELAAYGLDRIQPKDMHITLIEAGPRVLPALPERISVPVHKTLEKLGVKV
MTNAAVSEVTEDGLKTKDGEVIQASLKVWAAGIRAPGFLKDIDGLETNRINQLVVRPTLQ
TTRDDNIFAFGDCAACPQPGSDRNVPPRAQAAHQQASMLAQSLKARLENKALPTYEYKDY
GSLVSLSRFSAVGNLMGNLMGSVKLEGWLARMFYVSLYRMHQMALYGFFRTALMMLGSKI
GRGTEPRLKLH