rps12-A

UniProt ID: A4GYT5
Organism: Populus trichocarpa
Review Status: DRAFT
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Gene Description

Chloroplast small ribosomal subunit protein uS12cz, a plastid ribosome component supporting chloroplast translation.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0006412 translation
IBA
GO_REF:0000033 		ACCEPT
Summary: Translation is the core biological process for this plastid ribosomal protein.
Reason: The protein is a chloroplast ribosomal subunit component supporting plastid translation.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0005840 ribosome
IBA
GO_REF:0000033 		KEEP AS NON CORE
Summary: Generic ribosome is correct but less specific than the plastid ribosomal subunit term.
Reason: Retain the generic ribosome annotation as non-core because the small/large ribosomal subunit term is more precise for this protein.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0003735 structural constituent of ribosome
IEA
GO_REF:0000002 		ACCEPT
Summary: Structural constituent of ribosome is supported for this chloroplast ribosomal protein.
Reason: The reviewed entry identifies the protein as a conserved chloroplast ribosomal subunit protein.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0005840 ribosome
IEA
GO_REF:0000002 		KEEP AS NON CORE
Summary: Generic ribosome is correct but less specific than the plastid ribosomal subunit term.
Reason: Retain the generic ribosome annotation as non-core because the small/large ribosomal subunit term is more precise for this protein.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0006412 translation
IEA
GO_REF:0000120 		ACCEPT
Summary: Translation is the core biological process for this plastid ribosomal protein.
Reason: The protein is a chloroplast ribosomal subunit component supporting plastid translation.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0009507 chloroplast
IEA
GO_REF:0000120 		ACCEPT
Summary: Chloroplast localization is correct for rps12-A.
Reason: UniProt places this ribosomal protein in the chloroplast.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
SUBCELLULAR LOCATION: Plastid, chloroplast.
GO:0015935 small ribosomal subunit
IEA
GO_REF:0000002 		ACCEPT
Summary: small ribosomal subunit is the appropriate ribosomal complex term for rps12-A.
Reason: The reviewed entry identifies this as a chloroplast small/large ribosomal subunit protein.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
RecName: Full=Small ribosomal subunit protein uS12cz
GO:0019843 rRNA binding
IEA
GO_REF:0000104 		MODIFY
Summary: Generic rRNA binding is correct but less specific than small ribosomal subunit rRNA binding.
Reason: For this chloroplast small-subunit ribosomal protein, the small-ribosomal-subunit rRNA binding term is more precise than generic rRNA binding.
Supporting Evidence:
file:POPTR/rps12-A/rps12-A-uniprot.txt
DR GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-UniRule.

Core Functions

Acts as a chloroplast small-ribosomal-subunit protein supporting plastid translation.

Molecular Function:
structural constituent of ribosome
Directly Involved In:
translation
Cellular Locations:
chloroplast
In Complex:
small ribosomal subunit
Supporting Evidence:
  • file:POPTR/rps12-A/rps12-A-uniprot.txt
    RecName: Full=Small ribosomal subunit protein uS12cz
  • file:POPTR/rps12-A/rps12-A-uniprot.txt
    With S4 and S5 plays an important role in translational accuracy. Located at the interface of the 30S and 50S subunits
  • file:POPTR/rps12-A/rps12-A-uniprot.txt
    SUBCELLULAR LOCATION: Plastid, chloroplast.

Binds rRNA as part of the chloroplast small ribosomal subunit.

Molecular Function:
small ribosomal subunit rRNA binding
Directly Involved In:
translation
In Complex:
small ribosomal subunit
Supporting Evidence:
  • file:POPTR/rps12-A/rps12-A-uniprot.txt
    With S4 and S5 plays an important role in translational accuracy. Located at the interface of the 30S and 50S subunits

References

GO_REF:0000002
Gene Ontology annotation through association of InterPro records with GO terms
  • GO_REF:0000002 supplied one or more source GOA annotations reviewed in this file.
GO_REF:0000033
Annotation inferences using phylogenetic trees
  • GO_REF:0000033 supplied one or more source GOA annotations reviewed in this file.
GO_REF:0000104
Electronic Gene Ontology annotations created by transferring manual GO annotations between related proteins based on shared sequence features
  • GO_REF:0000104 supplied one or more source GOA annotations reviewed in this file.
GO_REF:0000120
Combined Automated Annotation using Multiple IEA Methods
  • GO_REF:0000120 supplied one or more source GOA annotations reviewed in this file.
file:POPTR/rps12-A/rps12-A-uniprot.txt
UniProtKB reviewed entry for rps12-A
  • UniProt identifies rps12-A as Small ribosomal subunit protein uS12cz, a chloroplast ribosomal protein.
file:POPTR/rps12-A/rps12-A-goa.tsv
QuickGO GOA annotations for rps12-A
  • GOA rows supplied the existing_annotations reviewed in this file.

Suggested Questions for Experts

Q: Are any Populus-specific plastid ribosome phenotypes known for rps12-A, or is current annotation entirely conservation-based?

Suggested Experiments

Experiment: Measure plastid ribosome assembly and chloroplast translation products in rps12-A perturbation or plastid-editing lines.

Type: targeted functional assay

📚 Additional Documentation

Notes

(rps12-A-notes.md)

rps12-A notes

  • UniProt identifies rps12-A as Small ribosomal subunit protein uS12cz [file:POPTR/rps12-A/rps12-A-uniprot.txt "RecName: Full=Small ribosomal subunit protein uS12cz"].
  • UniProt places rps12-A in the chloroplast [file:POPTR/rps12-A/rps12-A-uniprot.txt "SUBCELLULAR LOCATION: Plastid, chloroplast"].
  • Reviewed the ribosomal structural and translation annotations as core, while correcting compartment over-annotations to the plastid small ribosomal subunit context where needed.

📄 View Raw YAML

 
id: A4GYT5
gene_symbol: rps12-A
product_type: PROTEIN
status: DRAFT
taxon:
  id: NCBITaxon:3694
  label: Populus trichocarpa
description: Chloroplast small ribosomal subunit protein uS12cz, a plastid ribosome component supporting chloroplast translation.
existing_annotations:
- term:
    id: GO:0006412
    label: translation
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Translation is the core biological process for this plastid ribosomal protein.
    action: ACCEPT
    reason: The protein is a chloroplast ribosomal subunit component supporting plastid translation.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
- term:
    id: GO:0005840
    label: ribosome
  evidence_type: IBA
  original_reference_id: GO_REF:0000033
  review:
    summary: Generic ribosome is correct but less specific than the plastid ribosomal subunit term.
    action: KEEP_AS_NON_CORE
    reason: Retain the generic ribosome annotation as non-core because the small/large ribosomal subunit term is more precise for this protein.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
- term:
    id: GO:0003735
    label: structural constituent of ribosome
  evidence_type: IEA
  original_reference_id: GO_REF:0000002
  review:
    summary: Structural constituent of ribosome is supported for this chloroplast ribosomal protein.
    action: ACCEPT
    reason: The reviewed entry identifies the protein as a conserved chloroplast ribosomal subunit protein.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
- term:
    id: GO:0005840
    label: ribosome
  evidence_type: IEA
  original_reference_id: GO_REF:0000002
  review:
    summary: Generic ribosome is correct but less specific than the plastid ribosomal subunit term.
    action: KEEP_AS_NON_CORE
    reason: Retain the generic ribosome annotation as non-core because the small/large ribosomal subunit term is more precise for this protein.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
- term:
    id: GO:0006412
    label: translation
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Translation is the core biological process for this plastid ribosomal protein.
    action: ACCEPT
    reason: The protein is a chloroplast ribosomal subunit component supporting plastid translation.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
- term:
    id: GO:0009507
    label: chloroplast
  evidence_type: IEA
  original_reference_id: GO_REF:0000120
  review:
    summary: Chloroplast localization is correct for rps12-A.
    action: ACCEPT
    reason: UniProt places this ribosomal protein in the chloroplast.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'SUBCELLULAR LOCATION: Plastid, chloroplast.'
- term:
    id: GO:0015935
    label: small ribosomal subunit
  evidence_type: IEA
  original_reference_id: GO_REF:0000002
  review:
    summary: small ribosomal subunit is the appropriate ribosomal complex term for rps12-A.
    action: ACCEPT
    reason: The reviewed entry identifies this as a chloroplast small/large ribosomal subunit protein.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
  qualifier: part_of
- term:
    id: GO:0019843
    label: rRNA binding
  evidence_type: IEA
  original_reference_id: GO_REF:0000104
  review:
    summary: Generic rRNA binding is correct but less specific than small ribosomal subunit rRNA binding.
    action: MODIFY
    reason: For this chloroplast small-subunit ribosomal protein, the small-ribosomal-subunit rRNA binding term is more precise than generic rRNA binding.
    supported_by:
    - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
      supporting_text: DR   GO; GO:0019843; F:rRNA binding; IEA:UniProtKB-UniRule.
    proposed_replacement_terms:
    - id: GO:0070181
      label: small ribosomal subunit rRNA binding
references:
- id: GO_REF:0000002
  title: Gene Ontology annotation through association of InterPro records with GO terms
  findings:
  - statement: GO_REF:0000002 supplied one or more source GOA annotations reviewed in this file.
- id: GO_REF:0000033
  title: Annotation inferences using phylogenetic trees
  findings:
  - statement: GO_REF:0000033 supplied one or more source GOA annotations reviewed in this file.
- id: GO_REF:0000104
  title: Electronic Gene Ontology annotations created by transferring manual GO annotations between related proteins based on shared sequence features
  findings:
  - statement: GO_REF:0000104 supplied one or more source GOA annotations reviewed in this file.
- id: GO_REF:0000120
  title: Combined Automated Annotation using Multiple IEA Methods
  findings:
  - statement: GO_REF:0000120 supplied one or more source GOA annotations reviewed in this file.
- id: file:POPTR/rps12-A/rps12-A-uniprot.txt
  title: UniProtKB reviewed entry for rps12-A
  findings:
  - statement: UniProt identifies rps12-A as Small ribosomal subunit protein uS12cz, a chloroplast ribosomal protein.
- id: file:POPTR/rps12-A/rps12-A-goa.tsv
  title: QuickGO GOA annotations for rps12-A
  findings:
  - statement: GOA rows supplied the existing_annotations reviewed in this file.
core_functions:
- description: Acts as a chloroplast small-ribosomal-subunit protein supporting plastid translation.
  molecular_function:
    id: GO:0003735
    label: structural constituent of ribosome
  directly_involved_in:
  - id: GO:0006412
    label: translation
  locations:
  - id: GO:0009507
    label: chloroplast
  in_complex:
    id: GO:0015935
    label: small ribosomal subunit
  supported_by:
  - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
    supporting_text: 'RecName: Full=Small ribosomal subunit protein uS12cz'
  - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
    supporting_text: With S4 and S5 plays an important role in translational accuracy. Located at the interface of the 30S and 50S subunits
  - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
    supporting_text: 'SUBCELLULAR LOCATION: Plastid, chloroplast.'
- description: Binds rRNA as part of the chloroplast small ribosomal subunit.
  molecular_function:
    id: GO:0070181
    label: small ribosomal subunit rRNA binding
  directly_involved_in:
  - id: GO:0006412
    label: translation
  locations: []
  in_complex:
    id: GO:0015935
    label: small ribosomal subunit
  supported_by:
  - reference_id: file:POPTR/rps12-A/rps12-A-uniprot.txt
    supporting_text: With S4 and S5 plays an important role in translational accuracy. Located at the interface of the 30S and 50S subunits
suggested_questions:
- question: Are any Populus-specific plastid ribosome phenotypes known for rps12-A, or is current annotation entirely conservation-based?
suggested_experiments:
- description: Measure plastid ribosome assembly and chloroplast translation products in rps12-A perturbation or plastid-editing lines.
  experiment_type: targeted functional assay
proposed_new_terms: []