Protein Info for PGA1_c30490 in Phaeobacter inhibens DSM 17395

Updated annotation (from data): Malyl-CoA lyase (EC 4.1.3.24)
Rationale: Specifically important for utilizing Potassium acetate. Automated validation from mutant phenotype: the predicted function (4.1.3.24) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
Original annotation: putative citrate lyase subunit beta

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

• PF03328: HpcH_HpaI
  • amino acids 15 to 253 (239 residues), 131.7 bits, E=2.4e-42

Best Hits

Swiss-Prot: 87% identical to MCAL_RHOS5: L-malyl-CoA/beta-methylmalyl-CoA lyase (mcl1) from Rhodobacter sphaeroides (strain ATCC 17025 / ATH 2.4.3)

KEGG orthology group: K14450, L-malyl-CoA/beta-methylmalyl-CoA lyase (inferred from 93% identity to sil:SPO3608)

MetaCyc: 84% identical to malyl-CoA lyase subunit (Rhodobacter capsulatus)
Malyl-CoA lyase. [EC: 4.1.3.24]; 4.1.3.24 [EC: 4.1.3.24]

Predicted SEED Role

"Malyl-CoA lyase (EC 4.1.3.24)" in subsystem Photorespiration (oxidative C2 cycle) or Serine-glyoxylate cycle (EC 4.1.3.24)

MetaCyc Pathways

• methylaspartate cycle (15/19 steps found)
• 3-hydroxypropanoate cycle (9/13 steps found)
• ethylmalonyl-CoA pathway (7/11 steps found)
• formaldehyde assimilation I (serine pathway) (8/13 steps found)
• superpathway of the 3-hydroxypropanoate cycle (11/18 steps found)
• glyoxylate assimilation (7/13 steps found)
• crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) (7/14 steps found)

KEGG Metabolic Maps

• C5-Branched dibasic acid metabolism
• Glyoxylate and dicarboxylate metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.3.24

Sequence Analysis Tools

See I7DUE3 at UniProt or InterPro

Protein Sequence (320 amino acids)

>PGA1_c30490 Malyl-CoA lyase (EC 4.1.3.24) (Phaeobacter inhibens DSM 17395)
MSFRIQPAAPARPNRCQLFGPGSNTKLFPKMAASAADVINLDLEDSVAPLDKDVARANVI
EALNTVDWGNKYISVRINGLDTPYWYRDVVDLLEQAGDRLDQIMIPKVGCAEDVYAVDAL
VTAIERAKGRAKPISFEVIIESAAGIAHVEAIAAASPRLQAMSLGAADFAASMGMQTTGI
GGTQEDYYMLRAGEKHWSDPWHWAQAAIVAACRTHGILPVDGPFGDFSDDDGYIAQAKRS
ATLGMVGKWAIHPKQIALANQVFTPSDEAVGEAREILAAMEQAKANGEGATVYKGRLVDI
ASIKQAEVIVAQSELIAQNG