Protein Info for HSERO_RS05565 in Herbaspirillum seropedicae SmR1

Annotation: short-chain 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

Best Hits

Swiss-Prot: 40% identical to FABG_HAEIN: 3-oxoacyl-[acyl-carrier-protein] reductase FabG (fabG) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: None (inferred from 100% identity to hse:Hsero_1109)

MetaCyc: 32% identical to 3-hydroxy-2-methylbutyryl-CoA dehydrogenase subunit (Pseudomonas putida)
3-hydroxy-2-methylbutyryl-CoA dehydrogenase. [EC: 1.1.1.178]

Predicted SEED Role

"3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100)" in subsystem Fatty Acid Biosynthesis FASII or mycolic acid synthesis (EC 1.1.1.100)

MetaCyc Pathways

superpathway of fatty acids biosynthesis (E. coli) (50/53 steps found)
superpathway of fatty acid biosynthesis II (plant) (38/43 steps found)
palmitate biosynthesis II (type II fatty acid synthase) (29/31 steps found)
superpathway of unsaturated fatty acids biosynthesis (E. coli) (19/20 steps found)
oleate biosynthesis IV (anaerobic) (13/14 steps found)
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate) (9/9 steps found)
superpathway of fatty acid biosynthesis I (E. coli) (14/16 steps found)
biotin biosynthesis I (13/15 steps found)
cis-vaccenate biosynthesis (5/5 steps found)
fatty acid elongation -- saturated (5/5 steps found)
gondoate biosynthesis (anaerobic) (4/4 steps found)
8-amino-7-oxononanoate biosynthesis I (9/11 steps found)
(5Z)-dodecenoate biosynthesis I (5/6 steps found)
stearate biosynthesis II (bacteria and plants) (5/6 steps found)
8-amino-7-oxononanoate biosynthesis IV (4/5 steps found)
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast) (9/12 steps found)
palmitate biosynthesis III (21/29 steps found)
(5Z)-dodecenoate biosynthesis II (4/6 steps found)
L-isoleucine degradation I (4/6 steps found)
stearate biosynthesis IV (4/6 steps found)
anteiso-branched-chain fatty acid biosynthesis (24/34 steps found)
even iso-branched-chain fatty acid biosynthesis (24/34 steps found)
odd iso-branched-chain fatty acid biosynthesis (24/34 steps found)
tetradecanoate biosynthesis (mitochondria) (17/25 steps found)
2-methyl-branched fatty acid β-oxidation (9/14 steps found)
propanoate fermentation to 2-methylbutanoate (3/6 steps found)
petroselinate biosynthesis (2/6 steps found)
2-allylmalonyl-CoA biosynthesis (2/8 steps found)
streptorubin B biosynthesis (20/34 steps found)
mycolate biosynthesis (25/205 steps found)
superpathway of mycolate biosynthesis (26/239 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.100

Use Curated BLAST to search for 1.1.1.100 or 1.1.1.178

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 D8J1K5 at UniProt or InterPro

Protein Sequence (249 amino acids)

>HSERO_RS05565 short-chain dehydrogenase (Herbaspirillum seropedicae SmR1)
MLLKDKVAVITGGAGINGLGYATARLMAEQGARVVVLDLAQADPAAAAARIGSQHLGLVA
DVTDKASCETAAAAILQQFGRIDILVNNAGITQPVKTLEITGADYDRILDVSLRGTLYMS
QAVLPAMRAQQNGSIICISSVSAQRGGGILGGPHYSAAKAGVLGLARAMAREFGPEGIRV
NSITPGLIGTDIIKGKLTEEKKAEIAETIPLARLGRADDIGGACVFLGSDLSQYCTGITL
DVNGGMLIH