RIC7

UniProt ID: F4JLB7
Organism: Arabidopsis thaliana
Review Status: COMPLETE
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Gene Description

F4JLB7 is a 450-residue leucine-rich-repeat protein encoded at the Arabidopsis thaliana At4g28560 locus. Its N-terminal signal peptide, LRR-rich region, and hydrophobic C-terminal sequence are consistent with a membrane-associated receptor-like protein. The domain architecture supports a noncatalytic cell-surface signaling role, without a protein kinase domain. Its ligand specificity and downstream signaling partners remain unresolved.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0005886 plasma membrane
IBA
GO_REF:0000033
ACCEPT
Summary: The curated plasma-membrane IBA is consistent with the signal peptide, LRR domain architecture, and hydrophobic C terminus of the deposited F4JLB7 sequence.
Reason: Retain the PAINT localization inference. The target architecture supports membrane association, and there is no target-specific contrary evidence. The RIC7 guard-cell literature is not required to support this IBA.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0038023 signaling receptor activity
IBA
GO_REF:0000033
ACCEPT
Summary: The signaling-receptor IBA agrees with the target LRR receptor-like architecture; F4JLB7 is not established as an intracellular CRIB-domain effector.
Reason: Retain the curated phylogenetic inference. Absence of an intrinsic kinase domain does not contradict a noncatalytic signaling receptor, and the deposited sequence supplies no evidence of a switch to CRIB-mediated ROP binding. The precise ligand and pathway remain unresolved.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0016020 membrane
IEA
GO_REF:0000044
KEEP AS NON CORE
Summary: Membrane association is consistent with the target signal peptide, hydrophobic C terminus, and curated plasma-membrane IBA.
Reason: The broad membrane term is compatible with the sequence but less informative than the existing plasma-membrane annotation. Specific GPI anchoring and the correspondence of constructs in the cited literature to the deposited sequence are not established here.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0016020 membrane
TAS
PMID:12068095
Prediction of glycosylphosphatidylinositol-anchored proteins...
KEEP AS NON CORE
Summary: Membrane association is consistent with the target signal peptide, hydrophobic C terminus, and curated plasma-membrane IBA.
Reason: The broad membrane term is compatible with the sequence but less informative than the existing plasma-membrane annotation. Specific GPI anchoring and the correspondence of constructs in the cited literature to the deposited sequence are not established here.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0016020 membrane
TAS
PMID:12805588
Identification of glycosylphosphatidylinositol-anchored prot...
KEEP AS NON CORE
Summary: Membrane association is consistent with the target signal peptide, hydrophobic C terminus, and curated plasma-membrane IBA.
Reason: The broad membrane term is compatible with the sequence but less informative than the existing plasma-membrane annotation. Specific GPI anchoring and the correspondence of constructs in the cited literature to the deposited sequence are not established here.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0009507 chloroplast
ISM
GO_REF:0000122
UNDECIDED
Summary: The chloroplast assignment is a computational AtSubP inference, whereas the SignalP feature and LRR receptor-like architecture suggest secretory-pathway targeting.
Reason: The conflicting targeting predictions do not establish chloroplast localization or conclusively exclude it. Direct localization of the deposited F4JLB7 product is needed; RIC7 localization findings cannot be transferred solely by the shared database name.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ
GO:0005515 protein binding
IPI
PMID:11752391
A genome-wide analysis of Arabidopsis Rop-interactive CRIB m...
UNDECIDED
Summary: The published RIC7 cloning primers in PMID:11752391 match the adjacent AT4G28556 CRIB gene, supporting probable wrong-gene attribution of ROP binding to F4JLB7.
Reason: The sequence analysis maps both Wu RIC7 primers to AT4G28556 and finds no qualifying matches in AT4G28560. The locus-identity report therefore recommends correction of the experimental gene-product association. Retain UNDECIDED pending reconciliation of the source AGI-to-UniProt mapping and physical clone provenance; the primer evidence strongly favors the CRIB locus. This experiment should not support the LRR protein's core function through its shared RIC7 name.
Supporting Evidence:
file:ARATH/Q1G3K8/Q1G3K8-bioinformatics/RESULTS.md
None of the six primers has an exact 3β€² match of 14 or more bases in the AT4G28560 transcript NM_118998.1.
GO:0009860 pollen tube growth
IMP
PMID:11752391
A genome-wide analysis of Arabidopsis Rop-interactive CRIB m...
UNDECIDED
Summary: The published RIC7 cloning primers in PMID:11752391 match the adjacent AT4G28556 CRIB gene, supporting probable wrong-gene attribution of the pollen-tube overexpression phenotype to F4JLB7.
Reason: The sequence analysis maps both Wu RIC7 primers to AT4G28556 and finds no qualifying matches in AT4G28560. The locus-identity report therefore recommends correction of the experimental gene-product association. Retain UNDECIDED pending reconciliation of the source AGI-to-UniProt mapping and physical clone provenance; the primer evidence strongly favors the CRIB locus. This experiment should not support the LRR protein's core function through its shared RIC7 name.
Supporting Evidence:
file:ARATH/Q1G3K8/Q1G3K8-bioinformatics/RESULTS.md
None of the six primers has an exact 3β€² match of 14 or more bases in the AT4G28560 transcript NM_118998.1.
GO:0016324 apical plasma membrane
IDA
PMID:11752391
A genome-wide analysis of Arabidopsis Rop-interactive CRIB m...
UNDECIDED
Summary: The published RIC7 cloning primers in PMID:11752391 match the adjacent AT4G28556 CRIB gene, supporting probable wrong-gene attribution of apical plasma-membrane localization to F4JLB7.
Reason: The sequence analysis maps both Wu RIC7 primers to AT4G28556 and finds no qualifying matches in AT4G28560. The locus-identity report therefore recommends correction of the experimental gene-product association. Retain UNDECIDED pending reconciliation of the source AGI-to-UniProt mapping and physical clone provenance; the primer evidence strongly favors the CRIB locus. This experiment should not support the LRR protein's core function through its shared RIC7 name.
Supporting Evidence:
file:ARATH/Q1G3K8/Q1G3K8-bioinformatics/RESULTS.md
None of the six primers has an exact 3β€² match of 14 or more bases in the AT4G28560 transcript NM_118998.1.
GO:0007165 signal transduction
IC
PMID:11751054
The leucine-rich repeat as a protein recognition motif.
ACCEPT
Summary: A role in signal transduction is compatible with the curated signaling-receptor inference and LRR receptor-like architecture.
Reason: The broad signaling process is reasonable for this receptor-like protein. The general LRR reference supplies architectural context, not evidence for a specific ROP2-RIC7-Exo70B1 pathway in F4JLB7.
Supporting Evidence:
file:ARATH/F4JLB7/F4JLB7-uniprot.txt
DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ

Core Functions

F4JLB7 has a noncatalytic LRR receptor-like architecture consistent with the curated signaling-receptor inference. Its precise ligand and downstream pathway are unresolved.

Molecular Function:
signaling receptor activity
Cellular Locations:
Supporting Evidence:
  • file:ARATH/F4JLB7/F4JLB7-uniprot.txt
    DR InterPro; IPR001611; Leu-rich_rpt. DR InterPro; IPR032675; LRR_dom_sf. ... FT SIGNAL 1..22 FT /evidence="ECO:0000256|SAM:SignalP" ... GRALYSSARK VLPLIYFPAT LLALYISITQ

References

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Suggested Questions for Experts

Q: Published RIC7 primers match AT4G28556/Q1G3K8 rather than AT4G28560/F4JLB7. At which stage of source curation or AGI-to-UniProt export were the three PMID:11752391 experimental annotations associated with F4JLB7, and what source-level correction preserves the original assay provenance?

Suggested experts: TAIR curators

External Prediction Reviews

These computational predictions are reviewed separately from the GOA annotation set used for this review. The assessments below are from this project and do not constitute official GO annotations or endorsement by GO/UniProt. They are not included in the existing annotation review above.

ProtNLM2 External predictions

View prediction review YAML Β· F4JLB7-protnlm-predictions-review.yaml Β· Review status: COMPLETE

F4JLB7 is a 450-residue LRR-containing receptor-like protein without a protein kinase domain. Kinase activity is incompatible with this architecture, while participation in phosphorylation remains unresolved.

Source documents: genes/ARATH/F4JLB7/F4JLB7-uniprot.txt Β· genes/ARATH/F4JLB7/F4JLB7-goa.tsv Β· genes/ARATH/F4JLB7/F4JLB7-hypotheses/prediction-kinase-activity/openscientist.md

Review score: 2 = concordant with evidence; 1 = uncertain; 0 = discordant with evidence. This is an assessment score, not a model probability.

GO:0016310 phosphorylation GO_BP
UNC β€” Uncertain Review score: 1/2
Prediction method: ProtNLM2 Β· Version: UniProt 2024_06 pilot
Review rationale: The OpenScientist investigation integrates LRR domain architecture, catalytic-motif analysis, and predicted structure to argue against intrinsic protein kinase activity. Those findings do not exclude participation in phosphorylation through an associated kinase or signaling complex. The cached IBA signaling receptor annotation is compatible with such a role, but does not establish it. No target-specific pathway evidence establishes or excludes participation in phosphorylation, so this biological-process prediction remains uncertain.
Supporting Evidence:
GO:0016301 kinase activity GO_MF
NPI β€” Nonparalog incorrect Review score: 0/2
Prediction method: ProtNLM2 Β· Version: UniProt 2024_06 pilot
DOMAIN ARCHITECTURE MISMATCH
Review rationale: The OpenScientist investigation strongly supports rejection of kinase activity: it integrates LRR-only domain assignments, a sequence scan finding no ordered kinase catalytic motifs, and an AlphaFold model assessed as an LRR fold without a kinase lobe. These complementary findings argue against a protein kinase catalytic domain in the 450-residue target, rather than merely noting the absence of a kinase annotation in UniProt. The report also explains why the ERECTA FunFam match supports a shared LRR region without transferring the kinase's catalytic activity. The rejection rests on this combined architecture and analysis evidence, not on absence of a single short motif; it is a computational assessment without a direct biochemical assay. The kinase prediction is therefore NPI; participation in a phosphorylation pathway is a separate question.
Supporting Evidence:
  • file:ARATH/F4JLB7/F4JLB7-hypotheses/prediction-kinase-activity/openscientist.md: "Second, a **direct motif scan** of the sequence recovered 9 canonical LRR cores but found no ordered kinase catalytic triad; the isolated "DFG" (position 149, inside PEDFGSV) and a "GNGFHG" hit (position 186) are coincidental tripeptides embedded within the LRR solenoid, not part of a folded catalytic cleft."
  • file:ARATH/F4JLB7/F4JLB7-uniprot.txt: "ID F4JLB7_ARATH Unreviewed; 450 AA. ... DR GO; GO:0005886; C:plasma membrane; IBA:GO_Central. ... DR GO; GO:0038023; F:signaling receptor activity; IBA:GO_Central. ... DR InterPro; IPR001611; Leu-rich_rpt. ... DR InterPro; IPR032675; LRR_dom_sf. ... DR Pfam; PF00560; LRR_1; 3. ... DR Pfam; PF13855; LRR_8; 1. ... FT SIGNAL 1..22"

Deep Research

Falcon

(F4JLB7-deep-research-falcon.md)

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OpenScientist

(F4JLB7-hypotheses/prediction-kinase-activity/openscientist.md)

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