Protein Info for LRK54_RS07885 in Rhodanobacter denitrificans FW104-10B01

Annotation: bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase

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

• PF01081: Aldolase
  • amino acids 1 to 192 (192 residues), 228.8 bits, E=2.2e-72
• TIGR01182: 2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase
  • amino acids 3 to 197 (195 residues), 243.3 bits, E=7.4e-77

Best Hits

Swiss-Prot: 54% identical to ALKH_ECO57: KHG/KDPG aldolase (eda) from Escherichia coli O157:H7

KEGG orthology group: K01625, 2-dehydro-3-deoxyphosphogluconate aldolase / 4-hydroxy-2-oxoglutarate aldolase [EC: 4.1.2.14 4.1.3.16] (inferred from 67% identity to xau:Xaut_1019)

MetaCyc: 54% identical to KHG/KDPG aldolase (Escherichia coli K-12 substr. MG1655)
RXN-13990 [EC: 4.1.3.42]; 2-dehydro-3-deoxy-phosphogluconate aldolase. [EC: 4.1.3.42, 4.1.2.14, 4.1.2.55]; Malate dehydrogenase (oxaloacetate-decarboxylating). [EC: 4.1.3.42, 4.1.2.14, 4.1.2.55, 1.1.1.38, 1.1.1.40, 1.1.1.83, 4.1.1.112]

Predicted SEED Role

"4-Hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14)" (EC 4.1.2.14, EC 4.1.3.16)

MetaCyc Pathways

• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (23/26 steps found)
• superpathway of glycolysis and the Entner-Doudoroff pathway (16/17 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (19/22 steps found)
• Entner-Doudoroff pathway I (9/9 steps found)
• anaerobic energy metabolism (invertebrates, cytosol) (7/7 steps found)
• TCA cycle III (animals) (9/10 steps found)
• glyoxylate cycle (6/6 steps found)
• gluconeogenesis I (11/13 steps found)
• TCA cycle II (plants and fungi) (8/9 steps found)
• TCA cycle V (2-oxoglutarate synthase) (8/9 steps found)
• gluconeogenesis III (10/12 steps found)
• superpathway of glyoxylate bypass and TCA (10/12 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
• TCA cycle I (prokaryotic) (8/10 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (13/17 steps found)
• TCA cycle VIII (Chlamydia) (5/6 steps found)
• Entner-Doudoroff shunt (2/2 steps found)
• malate/L-aspartate shuttle pathway (2/2 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (7/9 steps found)
• mixed acid fermentation (12/16 steps found)
• trans-4-hydroxy-L-proline degradation I (3/5 steps found)
• chitin deacetylation (2/4 steps found)
• C4 photosynthetic carbon assimilation cycle, NAD-ME type (7/11 steps found)
• C4 photosynthetic carbon assimilation cycle, NADP-ME type (4/7 steps found)
• D-glucosaminate degradation (1/3 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (6/10 steps found)
• Entner-Doudoroff pathway III (semi-phosphorylative) (5/9 steps found)
• D-fructuronate degradation (1/4 steps found)
• reductive TCA cycle I (6/11 steps found)
• incomplete reductive TCA cycle (3/7 steps found)
• pyruvate fermentation to propanoate I (3/7 steps found)
• C4 photosynthetic carbon assimilation cycle, PEPCK type (8/14 steps found)
• methylgallate degradation (2/6 steps found)
• 4-deoxy-L-threo-hex-4-enopyranuronate degradation (1/5 steps found)
• D-galacturonate degradation I (1/5 steps found)
• methylaspartate cycle (11/19 steps found)
• protocatechuate degradation I (meta-cleavage pathway) (3/8 steps found)
• 3,6-anhydro-α-L-galactopyranose degradation (2/7 steps found)
• superpathway of β-D-glucuronosides degradation (2/7 steps found)
• formaldehyde assimilation I (serine pathway) (6/13 steps found)
• reductive TCA cycle II (5/12 steps found)
• superpathway of vanillin and vanillate degradation (3/10 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (5/13 steps found)
• L-glutamate degradation VIII (to propanoate) (3/11 steps found)
• superpathway of hexuronide and hexuronate degradation (2/10 steps found)
• syringate degradation (3/12 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (25/56 steps found)
• superpathway of microbial D-galacturonate and D-glucuronate degradation (5/31 steps found)

KEGG Metabolic Maps

• Arginine and proline metabolism
• 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 terpenoids and steroids
• Butanoate metabolism
• Carbon fixation in photosynthetic organisms
• Glyoxylate and dicarboxylate metabolism
• Pentose and glucuronate interconversions
• Pentose phosphate pathway
• Pyruvate metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.40

Use Curated BLAST to search for 1.1.1.38 or 1.1.1.40 or 1.1.1.83 or 4.1.1.112 or 4.1.2.14 or 4.1.2.55 or 4.1.3.16 or 4.1.3.42

Protein Sequence (203 amino acids)

>LRK54_RS07885 bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase (Rhodanobacter denitrificans FW104-10B01)
MRLAPVIPVVIIDDAKAAVPMARALVAGGIPTIEVTLRTPAALEAIRAIAAEVEGAVVGC
GTALSARDLQAARQAGARFAVSPGTSPRLLDAADDSELPLLPGVATASEAMALLERGYRH
LKFFPAVPAGGHKLLGAWASPLPQIRFCPTGGIGLSSAPDFLALPNVLCVGGSWLTPADR
LAAGDWAGIERLAREAAGLRRAD