Protein Info for PFR28_02925 in Pseudomonas sp. RS175
Annotation: 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming)
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: 84% identical to ACND_SHEON: 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (acnD) from Shewanella oneidensis (strain MR-1)
KEGG orthology group: K01681, aconitate hydratase 1 [EC: 4.2.1.3] (inferred from 87% identity to alv:Alvin_0079)MetaCyc: 84% identical to 2-methylcitrate dehydratase (Shewanella oneidensis)
RXN-8979 [EC: 4.2.1.117]
Predicted SEED Role
"2-methylcitrate dehydratase FeS dependent (EC 4.2.1.79)" in subsystem Methylcitrate cycle or Propionate-CoA to Succinate Module (EC 4.2.1.79)
MetaCyc Pathways
- superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (21/26 steps found)
- partial TCA cycle (obligate autotrophs) (8/8 steps found)
- 2-methylcitrate cycle I (5/5 steps found)
- superpathway of glyoxylate bypass and TCA (10/12 steps found)
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (17/22 steps found)
- ethene biosynthesis V (engineered) (19/25 steps found)
- superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
- TCA cycle I (prokaryotic) (8/10 steps found)
- 2-methylcitrate cycle II (5/6 steps found)
- glyoxylate cycle (5/6 steps found)
- TCA cycle V (2-oxoglutarate synthase) (7/9 steps found)
- TCA cycle VI (Helicobacter) (7/9 steps found)
- TCA cycle VII (acetate-producers) (7/9 steps found)
- mixed acid fermentation (12/16 steps found)
- TCA cycle II (plants and fungi) (6/9 steps found)
- TCA cycle IV (2-oxoglutarate decarboxylase) (6/9 steps found)
- nitrogen remobilization from senescing leaves (5/8 steps found)
- TCA cycle III (animals) (6/10 steps found)
- reductive TCA cycle I (6/11 steps found)
- reductive TCA cycle II (4/12 steps found)
- methylaspartate cycle (9/19 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from terpenoid and polyketide
- Biosynthesis of phenylpropanoids
- Biosynthesis of plant hormones
- Biosynthesis of terpenoids and steroids
- Citrate cycle (TCA cycle)
- Glyoxylate and dicarboxylate metabolism
- Propanoate metabolism
- Reductive carboxylate cycle (CO2 fixation)
Isozymes
Compare fitness of predicted isozymes for: 4.2.1.3, 4.2.1.79
Use Curated BLAST to search for 4.2.1.117 or 4.2.1.3 or 4.2.1.79
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 (863 amino acids)
>PFR28_02925 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (Pseudomonas sp. RS175) MNTEFRKPLPGTALDYFDVRAAVDAICPGAYDGLPYTARVLAENLVRRCEPATLRESLLQ LIERKRDLDFPWFPARVVCHDILGQTALVDLAGLRDAIAQQGGDPAQVNPVVPTQLIVDH SLAVESGGADPQAFAKNRAIEDRRNEDRFHFINWTKKAFKNVDVIPPGNGIMHQINLEKM SPVIQQRDGVAFPDTCVGTDSHTPHVDALGVIAIGVGGLEAESVMLGRASWMRLPEIVGV ELTGKLQPGITATDMVLALTEFLRKQKVVGAWLEFFGEGASALTLGDRATISNMAPEYGA TAAMFYIDQQTIDYLKLTGREDTQVQLVETYARHVGLWADSLKGAQYERGLTFDLSSVVR NMAGPSNPHARVAVSDLAAKGIAGQWTEVPGQMPDGAVIIAAITSCTNTSNPRNVIAAGL LARNANRLGLTRKPWVKSSLAPGSKTVALYLDEAGLTPELEKLGFGVVAFACTTCNGMSG ALDPAIQQEIIDRDLYATAVLSGNRNFDGRIHPYAKQAFLASPPLVVAYAIAGTIRFDIE KDVLGVVEGREIRLKDIWPSDEEVDAVVKASVKPEQFRKVYIPMFAIQEDTGPKVTPLYD WRPQSTYIRRPPYWEGALAGARPLKGMRPLAVLPDNITTDHLSPSNAIMADSAAGEYLAK MGLPEEDFNSYATHRGDHLTAQRATFANPKLFNEMVQENGKVKQGSLARVEPEGKVMRMW EAIETYMGRKQSLIIIAGADYGQGSSRDWAAKGVRLAGVEAIVAEGFERIHRTNLVGMGV LPLEFKPGTNRKTLGIDGSEIYDVIGERTPRATLTLVITRKNGERLEVPVTCRLDTAEEV SIYEAGGVLQRFAQDFLESAVAV