POP2 Pyridoxal phosphate (PLP)-dependent transferases superfamily protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: POP2
Official Full Name: Pyridoxal phosphate (PLP)-dependent transferases superfamily protein
Primary source: TAIR:AT3G22200
Locus tag: AT3G22200
See related: Araport:AT3G22200
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: GABA-T; GAMMA-AMINOBUTYRATE TRANSAMINASE; HER1; HEXENAL RESPONSE1; POLLEN-PISTIL INCOMPATIBILITY 2
Summary: Genetically redundant with POP3;mediates pollen tube guidance. Double mutants are self sterile; gamma-aminobutyrate transaminase subunit precursor; nuclear gene for mitochondrial product. Encodes gamma-aminobutyrate transaminase that uses pyruvate instead of alpha-ketoglutarate as cosubstrate. Mutations in POP2/HER1 render roots resistant to the inhibitory growth effects of the volatile organic compound E-2-hexenal implicated in plant defense.
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Genomic context

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See POP2 in Genome Data Viewer

Location:: chromosome: 3

Exon count:: 19

Sequence:: Chromosome: 3; NC_003074.8 (7835144..7839061)

Chromosome 3 - NC_003074.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

strong connection between GABA metabolism and glyoxylate cycle during stress
Title: Fiat lux! Phylogeny and bioinformatics shed light on GABA functions in plants.
AtGABA-T is functionally interchangeable with ScGABA-TKG for GABA growth, thermotolerance and limiting production of ROS, regardless of location in mitochondria or cytosol of yeast cells, but AtGABA-T is about half as efficient in doing so as ScGABA-TKG.
Title: GABA transaminases from Saccharomyces cerevisiae and Arabidopsis thaliana complement function in cytosol and mitochondria.
GABA-T deficiency during salt stress causes root and hypocotyl developmental defects and alterations of cell wall composition.
Title: γ-Aminobutyric acid transaminase deficiency impairs central carbon metabolism and leads to cell wall defects during salt stress in Arabidopsis roots.
The GABA transaminase deficient mutant pop2-1 is ovsersensitive to NaCl.
Title: The Arabidopsis pop2-1 mutant reveals the involvement of GABA transaminase in salt stress tolerance.
GABA-T possesses both pyruvate- and glyoxylate-dependent activities.
Title: Biochemical characterization, mitochondrial localization, expression, and potential functions for an Arabidopsis gamma-aminobutyrate transaminase that utilizes both pyruvate and glyoxylate.
Data suggest that POP2 mutants suppress the phenotype of succinic semialdehyde dehydrogenase (ssadh) mutants in Arabidopsis.
Title: Mutants of GABA transaminase (POP2) suppress the severe phenotype of succinic semialdehyde dehydrogenase (ssadh) mutants in Arabidopsis.
isolation and characterization of the her1 mutant (encoding GABA-TP) altered in a specific response to E-2-hexenal; study shows that, as a consequence of the mutation in GABA-TP, her1 plants accumulate high GABA levels
Title: The Arabidopsis her1 mutant implicates GABA in E-2-hexenal responsiveness.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_001203018.1

Supported by ESTs:

NM_113117.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables 4-aminobutyrate:pyruvate transaminase activity	IDA Inferred from Direct Assay more info
enables 4-aminobutyrate:pyruvate transaminase activity	IEA Inferred from Electronic Annotation more info
enables cobalt ion binding	HDA more info	PubMed
enables pyridoxal phosphate binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	HDA more info	PubMed

Process	Evidence Code	Pubs
involved_in adaxial/abaxial axis specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within beta-alanine catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fruit development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gamma-aminobutyrate shunt	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gamma-aminobutyric acid catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within gamma-aminobutyric acid metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glutamate metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glutamine metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within inositol metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in leaf development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pollen tube adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pollen tube growth	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pollen tube growth	NAS Non-traceable Author Statement more info
acts_upstream_of_or_within pollen tube guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to alcohol	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to salt stress	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within root development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within shoot system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within succinate metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within sucrose metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	HDA more info	PubMed
located_in cytoplasm	ISM Inferred from Sequence Model more info
located_in cytosol	HDA more info	PubMed
NOT located_in cytosol	RCA inferred from Reviewed Computational Analysis more info	PubMed
located_in mitochondrion	HDA more info	PubMed
located_in plant-type vacuole	HDA more info	PubMed

General protein information

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Preferred Names: Pyridoxal phosphate (PLP)-dependent transferases superfamily protein

NP_001189947.1

POLLEN-PISTIL INCOMPATIBILITY 2 (POP2); CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase class-III (InterPro:IPR005814), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: HOPW1-1-interacting 1 (TAIR:AT1G80600.1).

NP_566700.1

POLLEN-PISTIL INCOMPATIBILITY 2 (POP2); FUNCTIONS IN: 4-aminobutyrate:pyruvate transaminase activity, cobalt ion binding, 4-aminobutyrate transaminase activity, zinc ion binding; INVOLVED IN: in 11 processes; LOCATED IN: mitochondrion, plasma membrane; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 16 growth stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase class-III (InterPro:IPR005814), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: HOPW1-1-interacting 1 (TAIR:AT1G80600.1); Has 35485 Blast hits to 35478 proteins in 2746 species: Archae - 740; Bacteria - 23053; Metazoa - 633; Fungi - 902; Plants - 413; Viruses - 17; Other Eukaryotes - 9727 (source: NCBI BLink).

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_003074.8 Reference assembly

Range

7835144..7839061

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001203018.1 → NP_001189947.1 Pyridoxal phosphate (PLP)-dependent transferases superfamily protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001189947.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A178VBB5

Conserved Domains (2) summary

PLN02760
Location:12 → 512

PLN02760; 4-aminobutyrate:pyruvate transaminase

COG0160
Location:78 → 501

GabT; 4-aminobutyrate aminotransferase or related aminotransferase [Amino acid transport and metabolism]
NM_113117.4 → NP_566700.1 Pyridoxal phosphate (PLP)-dependent transferases superfamily protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_566700.1

Status: REVIEWED

UniProtKB/Swiss-Prot

B9DHS0, F4J064, Q94CE5, Q94FS9, Q9LIE2

UniProtKB/TrEMBL

A0A178VBB5, A0A654FAV3

Conserved Domains (1) summary

PLN02760
Location:1 → 503

PLN02760; 4-aminobutyrate:pyruvate transaminase