BRADI_1g22147v3

UniProt ID: A0A0Q3KVX9
Organism: Brachypodium distachyon
Review Status: DRAFT
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Gene Description

BRADI_1g22147v3 encodes a predicted pectate lyase, EC 4.2.2.2, in Brachypodium distachyon. The enzyme is expected to cleave demethylesterified homogalacturonan/pectate in the plant cell wall by beta-elimination.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0030570 pectate lyase activity
IBA
GO_REF:0000033 		ACCEPT
Summary: ACCEPT. Pectate lyase activity is the specific molecular function of this predicted enzyme.
Reason: The IBA call is consistent with the UniProt EC assignment and PANTHER pectate lyase subfamily placement. This is the specific molecular function expected for a polysaccharide lyase family 1 enzyme. Falcon did not find gene-specific Brachypodium experiments, so the support is family/mechanism inference rather than direct BRADI_1g22147v3 biochemistry.
Supporting Evidence:
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt
RecName: Full=Pectate lyase; EC=4.2.2.2.
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt
PANTHER; PTHR31683:SF113; PECTATE LYASE.
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-deep-research-falcon.md
The report found no explicit BRADI_1g22147v3/A0A0Q3KVX9 literature, but PL1/pectate-lyase literature supports beta-elimination cleavage of low- or non-methylesterified homogalacturonan.
GO:0030570 pectate lyase activity
IEA
GO_REF:0000120 		ACCEPT
Summary: ACCEPT. The automated assignment agrees with the IBA and UniProt enzyme assignment.
Reason: This duplicates the IBA-supported enzyme activity but is not contradicted; both automated and phylogenetic evidence point to pectate lyase activity.
Supporting Evidence:
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt
RecName: Full=Pectate lyase; EC=4.2.2.2.
GO:0045490 pectin catabolic process
IEA
GO_REF:0000041 		ACCEPT
Summary: ACCEPT. UniPathway correctly adds plant cell-wall pathway context: a pectate lyase directly cleaves pectin/pectate polymers during pectin degradation.
Reason: This is direct pathway context for the enzyme activity, not a broad downstream phenotype. UniProt maps the protein to pectin degradation step 2/5, and the pectate lyase activity provides the mechanistic basis. The specific tissue and developmental context in Brachypodium remains unknown.
Supporting Evidence:
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt
PATHWAY: Glycan metabolism; pectin degradation; 2-dehydro-3-deoxy-D-gluconate from pectin: step 2/5.
file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-deep-research-falcon.md
Plant pectate lyase family evidence places the likely reaction in the apoplast/cell wall, but no BRADI_1g22147v3-specific expression, localization, mutant, or enzyme assay was recovered.

Core Functions

Catalyzes pectate/pectin cleavage as a pectate lyase in plant cell-wall pectin catabolism.

Molecular Function:
pectate lyase activity
Directly Involved In:
pectin catabolic process
Supporting Evidence:
  • file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt
    RecName: Full=Pectate lyase; EC=4.2.2.2. PATHWAY: Glycan metabolism; pectin degradation.
  • file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-deep-research-falcon.md
    Falcon deep research supports pectate lyase activity and pectin catabolic process as family-based reaction/pathway context, while explicitly noting no BRADI_1g22147v3-specific expression, localization, mutant, or biochemical evidence was recovered.

References

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Deep Research

Falcon

(BRADI_1g22147v3-deep-research-falcon.md)

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📚 Additional Documentation

Notes

(BRADI_1g22147v3-notes.md)

BRADI_1g22147v3 notes

  • UniProt A0A0Q3KVX9 names BRADI_1g22147v3 as pectate lyase, EC 4.2.2.2 [file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt "RecName: Full=Pectate lyase"; "EC=4.2.2.2"].
  • UniProt records pectin degradation pathway context [file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-uniprot.txt "PATHWAY: Glycan metabolism; pectin degradation"].
  • The UniPathway GO:0045490 row is accepted because pectate lyase directly participates in pectin catabolism [GO_REF:0000041; file:BRADI/BRADI_1g22147v3/BRADI_1g22147v3-goa.tsv].

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