Protein Info for BPHYT_RS12305 in Burkholderia phytofirmans PsJN

Updated annotation (from data): Malate synthase (EC 2.3.3.9)
Rationale: Specifically important for utilizing Tween 20. Automated validation from mutant phenotype: the predicted function (MALSYN-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: malate synthase

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

• PF20656: MS_N
  • amino acids 16 to 77 (62 residues), 71.7 bits, E=4.4e-24
• TIGR01344: malate synthase A
  • amino acids 30 to 536 (507 residues), 778.1 bits, E=1.4e-238
• PF01274: MS_TIM-barrel
  • amino acids 167 to 411 (245 residues), 355.6 bits, E=1.5e-110
• PF20659: MS_C
  • amino acids 419 to 536 (118 residues), 136 bits, E=1.3e-43

Best Hits

Swiss-Prot: 59% identical to MASY_MYXXD: Malate synthase (mls) from Myxococcus xanthus (strain DK 1622)

KEGG orthology group: K01638, malate synthase [EC: 2.3.3.9] (inferred from 100% identity to bpy:Bphyt_2490)

MetaCyc: 52% identical to malate synthase (Saccharomyces cerevisiae)
Malate synthase. [EC: 2.3.3.9]; 3-ethylmalate synthase. [EC: 2.3.3.9, 2.3.3.7]

Predicted SEED Role

"Malate synthase (EC 2.3.3.9)" in subsystem Photorespiration (oxidative C2 cycle) (EC 2.3.3.9)

MetaCyc Pathways

• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (22/26 steps found)
• glyoxylate cycle (6/6 steps found)
• superpathway of glyoxylate bypass and TCA (10/12 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
• glycolate and glyoxylate degradation II (2/2 steps found)
• L-arabinose degradation IV (6/8 steps found)
• superpathway of glycol metabolism and degradation (5/7 steps found)
• chitin deacetylation (2/4 steps found)
• D-xylose degradation IV (4/7 steps found)
• butanol and isobutanol biosynthesis (engineered) (4/8 steps found)
• crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) (2/14 steps found)
• superpathway of pentose and pentitol degradation (22/42 steps found)

KEGG Metabolic Maps

• Glyoxylate and dicarboxylate metabolism
• Pyruvate metabolism

Isozymes

Compare fitness of predicted isozymes for: 2.3.3.9

Use Curated BLAST to search for 2.3.3.7 or 2.3.3.9

Sequence Analysis Tools

See B2SXN0 at UniProt or InterPro

Protein Sequence (536 amino acids)

>BPHYT_RS12305 Malate synthase (EC 2.3.3.9) (Burkholderia phytofirmans PsJN)
MASPQSSHSSLQLPQGMEITAEIKPGYDAILSREALELVAALHRTFEPRRQQLLQARAER
TKRLDAGERPDFLAETKSVRDGDWTIAPLPQDLQCRRVEITGPVERKMIINALNSGADSY
MTDFEDSNAPSWDNQITGHINLKDAVRRTISLEQNGKSYTLNDKVATLIVRPRGWHLDEK
HVKVDGKRVSGGIFDFALFMVHNAKELVARGSGPYFYLPKMESHLEARLWNDIFVAAQEA
VGVPRGTIRATVLIETIVAAFEMDEILYELREHSSGLNAGRWDYIFSAIKKFKADRDFCL
ADRSQITMTSPFMRAYALLLLKTCHRRNAPAIGGMSALIPIKNDPAANDKAMSGVRSDKA
RDAGDGYDGGWVAHPGLVPIAMEEFVKVLGDKPNQIGKQRDDVLVTATDLTDFRPEAPIT
EGGLRNNINVGIHYLGAWLAGNGCVPIHNLMEDAATAEISRSQVWQWIRSPKGKLEDGRK
VTAELVRELSAQELEKVKQAVGGDTKPYERAAQIFEEMSTSEQFTDFLTLPLYEEI