Gene Ontology annotation through association of InterPro records with GO terms
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InterPro IPR017556 correctly identifies this as malonate decarboxylase beta subunit
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Correctly maps to carboxy-lyase activity (GO:0016831)
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Incorrectly maps to carbohydrate metabolic process (overly broad)
Gene Ontology annotation based on Enzyme Commission mapping
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Based on incorrect EC 6.4.1.3 in UniProt entry
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EC 6.4.1.3 is propionyl-CoA carboxylase (ligase), not the function of MdcD
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Correct EC should be 4.1.1.87 (malonyl-S-ACP decarboxylase) or 4.1.1.88 (complex)
Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword mapping
TreeGrafter-generated GO annotations
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PANTHER family PTHR42995 includes both ACC and MDC beta subunits
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Subfamily SF1 correctly identifies MALONATE DECARBOXYLASE BETA SUBUNIT
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TreeGrafter appears to have used broader family annotations rather than subfamily
Deep research review of mdcD gene function
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Comparative MdcD-MdcE mechanism decarboxylates the specialized ACP-bound malonyl group; AM1 assignment is inferential.
"conclusions for AM1 are inferred from conserved function across mdcD orthologs."
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The report distinguishes the physiological ACP substrate from weak in-vitro malonyl-CoA decarboxylation in Pseudomonas.
"malonyl-CoA can be a poor in vitro substrate in some systems but is not the native substrate."
Methylobacterium genome sequences - a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources
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Source of the mdcD gene sequence (locus MexAM1_META1p0025) in Methylorubrum extorquens AM1
"The genome of M. extorquens AM1 totals 6.88 Mb and consists of five replicons: a chromosome of 5.51 Mbp (Acc. No. CP001510)"
Crystal structure of a Pseudomonas malonate decarboxylase holoenzyme hetero-tetramer.
UniProtKB C5APL4 malonate decarboxylase beta subunit
MdcD full-gene review and independently checked target neighborhood