PAD1 phenylacrylic acid decarboxylase PAD1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: PAD1
Gene description: phenylacrylic acid decarboxylase PAD1
Primary source: SGD:S000002946
Locus tag: YDR538W
See related: AllianceGenome:SGD:S000002946
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: POF1
Summary: Enables carboxy-lyase activity and mRNA binding activity. Involved in cinnamic acid catabolic process. Located in mitochondrion. [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: IV

Exon count:: 1

Sequence:: Chromosome: IV; NC_001136.10 (1510902..1511630)

Chromosome IV - NC_001136.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001136.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Ferulic acid decarboxylase catalyzes the decarboxylation of phenylacrylic acid using a newly identified cofactor, prenylated flavin mononucleotide (prFMN). The proposed mechanism involves the formation of a putative pentacyclic intermediate formed by a 1,3 dipolar cyclo-addition of prFMN with the alpha-beta double bond of the substrate, which serves to activate the substrate toward decarboxylation.
Title: Evidence for a 1,3-Dipolar Cyclo-addition Mechanism in the Decarboxylation of Phenylacrylic Acids Catalyzed by Ferulic Acid Decarboxylase.
The kinetics and substrate requirements of prenyl-flavin synthase were determined. Dimethylallyl pyrophosphate is the prenyl donor. The kinetics of the reaction are extremely slow: kcat = 12.2 +/- 0.2 h(-1), and KM for dimethylallyl pyrophosphate = 9.8 +/- 0.7 muM. The reaction of FMN was described well by first-order kinetics with a kapp of 17.4 +/- 1.1 h(-1). scPFS.
Title: Kinetic Characterization of Prenyl-Flavin Synthase from Saccharomyces cerevisiae.
PAD1 synthesizes a cofactor required by FDC (ferulic acid decarboxylase) for decarboxylase activity.
Title: Isofunctional enzymes PAD1 and UbiX catalyze formation of a novel cofactor required by ferulic acid decarboxylase and 4-hydroxy-3-polyprenylbenzoic acid decarboxylase.
POF1 is an ATPase that is likely involved in the protein degradation pathway.
Title: The promoter of filamentation (POF1) protein from Saccharomyces cerevisiae is an ATPase involved in the protein quality control process.
examination of the contribution of the PAD1 gene to the decarboxylation of phenylacrylic acid using gene disruptants and the corresponding transformants in which the disrupted genes were recovered.
Title: PAD1 and FDC1 are essential for the decarboxylation of phenylacrylic acids in Saccharomyces cerevisiae.
Degrades the food preservative sorbic acid (2,4-hexadienoic acid) to a volatile hydrocarbon, identified by gas chromatography mass spectrometry as 1,3-pentadine.
Title: Decarboxylation of sorbic acid by spoilage yeasts is associated with the PAD1 gene.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ha3077 (e-PCR)
- UniSTS:515638

Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables carboxy-lyase activity	IBA Inferred from Biological aspect of Ancestor more info
enables carboxy-lyase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables catalytic activity	IEA Inferred from Electronic Annotation more info
enables flavin prenyltransferase activity	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables prenyltransferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in aromatic compound catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cinnamic acid catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in mitochondrion	HDA more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: phenylacrylic acid decarboxylase PAD1

NP_010827.3

EC 2.5.1.129

Phenylacrylic acid decarboxylase; decarboxylates aromatic carboxylic acids to the corresponding vinyl derivatives; confers resistance to cinnamic acid; overexpression of both Pad1p and Fdc1p increases cinnamic acid decarboxylase activity due to the Pad1p-catalyzed formation of a diffusible cofactor required for Fdc1p activity; contains mRNA binding activity; homolog of E. coli UbiX

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001136.10 Reference assembly

Range

1510902..1511630

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180846.3 → NP_010827.3 TPA: phenylacrylic acid decarboxylase PAD1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_010827.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VTF7, P33751

UniProtKB/TrEMBL

A0A8H8UP65, A6ZZC3, B2NIF8, B3LFD5, B5VH58, C7GST4

Conserved Domains (1) summary

TIGR00421
Location:56 → 236

ubiX_pad; UbiX family flavin prenyltransferase