Protein Info for GFF5612 in Variovorax sp. SCN45
Annotation: Succinate-semialdehyde dehydrogenase [NAD(P)+] (EC 1.2.1.16)
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: 68% identical to DAVD_PSEAE: Glutarate-semialdehyde dehydrogenase (davD) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
KEGG orthology group: K00135, succinate-semialdehyde dehydrogenase (NADP+) [EC: 1.2.1.16] (inferred from 73% identity to rsc:RCFBP_21417)MetaCyc: 68% identical to glutarate semialdehyde dehydrogenase (Pseudomonas aeruginosa)
Glutarate-semialdehyde dehydrogenase. [EC: 1.2.1.20]
Predicted SEED Role
"Aldehyde dehydrogenase (EC 1.2.1.3)" in subsystem Entner-Doudoroff Pathway or Glycerolipid and Glycerophospholipid Metabolism in Bacteria or Methylglyoxal Metabolism or Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate (EC 1.2.1.3)
MetaCyc Pathways
- ethanol degradation II (3/3 steps found)
- ethanol degradation IV (3/3 steps found)
- 4-aminobutanoate degradation III (2/2 steps found)
- superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) (6/8 steps found)
- phytol degradation (3/4 steps found)
- superpathway of glycol metabolism and degradation (5/7 steps found)
- ethanol degradation III (2/3 steps found)
- hypotaurine degradation (2/3 steps found)
- putrescine degradation IV (2/3 steps found)
- L-lysine degradation X (4/6 steps found)
- ethylene glycol degradation (1/2 steps found)
- putrescine degradation I (1/2 steps found)
- putrescine degradation V (1/2 steps found)
- mitochondrial NADPH production (yeast) (3/5 steps found)
- octane oxidation (3/5 steps found)
- fatty acid α-oxidation I (plants) (2/4 steps found)
- putrescine degradation III (2/4 steps found)
- histamine degradation (1/3 steps found)
- 3-methyl-branched fatty acid α-oxidation (3/6 steps found)
- L-lysine degradation IV (2/5 steps found)
- D-arabinose degradation II (1/4 steps found)
- L-tryptophan degradation X (mammalian, via tryptamine) (1/4 steps found)
- L-lysine degradation I (3/7 steps found)
- limonene degradation IV (anaerobic) (3/7 steps found)
- serotonin degradation (3/7 steps found)
- superpathway of L-arginine and L-ornithine degradation (7/13 steps found)
- Entner-Doudoroff pathway II (non-phosphorylative) (4/9 steps found)
- dopamine degradation (1/5 steps found)
- superpathway of ornithine degradation (3/8 steps found)
- superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation (5/11 steps found)
- ceramide degradation by α-oxidation (2/7 steps found)
- sphingosine and sphingosine-1-phosphate metabolism (4/10 steps found)
- L-lysine degradation III (1/6 steps found)
- alkane oxidation (1/6 steps found)
- aromatic biogenic amine degradation (bacteria) (1/8 steps found)
- noradrenaline and adrenaline degradation (4/13 steps found)
- ceramide and sphingolipid recycling and degradation (yeast) (4/16 steps found)
- superpathway of pentose and pentitol degradation (16/42 steps found)
- superpathway of L-lysine degradation (12/43 steps found)
KEGG Metabolic Maps
- 1,2-Dichloroethane degradation
- 3-Chloroacrylic acid degradation
- Arginine and proline metabolism
- Ascorbate and aldarate metabolism
- Butanoate metabolism
- Fatty acid metabolism
- Glutamate metabolism
- Glycerolipid metabolism
- Glycolysis / Gluconeogenesis
- Histidine metabolism
- Limonene and pinene degradation
- Lysine degradation
- Propanoate metabolism
- Pyruvate metabolism
- Tryptophan metabolism
- Tyrosine metabolism
- Urea cycle and metabolism of amino groups
- Valine, leucine and isoleucine degradation
- beta-Alanine metabolism
Isozymes
Compare fitness of predicted isozymes for: 1.2.1.16, 1.2.1.3
Use Curated BLAST to search for 1.2.1.16 or 1.2.1.20 or 1.2.1.3
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
Find the best match in UniProt
Protein Sequence (487 amino acids)
>GFF5612 Succinate-semialdehyde dehydrogenase [NAD(P)+] (EC 1.2.1.16) (Variovorax sp. SCN45) MSIRLKDPTLLRQQAYIAGAWADADDGATVAVTNPANGQRIGTVPMCGADETARAIAAAE KAQKAWARVPAKERSAILRRLNDLMLANVDDLALIMTTEQGKPMAESRGEIAYAASFIEW FAEEARRVYGDTIPAPQADRRILALKQPVGVTAAITPWNFPTAMLTRKAGPALAAGCAMV VKPATQTPFSALAFAELAERAGVPEGLLSVLTGSASKIGGEMTRSPVVRKLTFTGSTEVG RTLMKQSADTIKKLSLELGGNAPFIVFDDADVDAAVEGAMVSKYRNTGQTCVCANRIYVQ RGVLEAFTQKLVAKVNALKVGDGTEAGVTQGPLIDAKAVEKIEEHVADAVAKGGKVLAGG KRHALGGLFYEPTVIGNATADMLFAREETFGPLAPVFAFDTEEEAIAAANDTEFGLAAYF YSRDIGRIMRVAEALESGIVGVNTGLVSTAEAPFGGVKQSGLGREGSKYGLDDFLEVKYV CLAGLDK