LIMD1

id: Q9UGP4
gene_symbol: LIMD1
product_type: PROTEIN
status: INITIALIZED
taxon:
  id: NCBITaxon:9606
  label: Homo sapiens
description: 'TODO: Add description for LIMD1'
existing_annotations:
  - term:
      id: GO:0003714
      label: transcription corepressor activity
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005912
      label: adherens junction
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005634
      label: nucleus
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0006355
      label: regulation of DNA-templated transcription
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0007010
      label: cytoskeleton organization
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0035331
      label: negative regulation of hippo signaling
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0000932
      label: P-body
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0001666
      label: response to hypoxia
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005667
      label: transcription regulator complex
    evidence_type: IBA
    original_reference_id: GO_REF:0000033
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0000932
      label: P-body
    evidence_type: IEA
    original_reference_id: GO_REF:0000120
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0001666
      label: response to hypoxia
    evidence_type: IEA
    original_reference_id: GO_REF:0000117
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005634
      label: nucleus
    evidence_type: IEA
    original_reference_id: GO_REF:0000044
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005737
      label: cytoplasm
    evidence_type: IEA
    original_reference_id: GO_REF:0000120
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005912
      label: adherens junction
    evidence_type: IEA
    original_reference_id: GO_REF:0000044
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005925
      label: focal adhesion
    evidence_type: IEA
    original_reference_id: GO_REF:0000044
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0031047
      label: regulatory ncRNA-mediated gene silencing
    evidence_type: IEA
    original_reference_id: GO_REF:0000043
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0035278
      label: miRNA-mediated gene silencing by inhibition of translation
    evidence_type: IEA
    original_reference_id: GO_REF:0000117
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0035331
      label: negative regulation of hippo signaling
    evidence_type: IEA
    original_reference_id: GO_REF:0000117
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0046872
      label: metal ion binding
    evidence_type: IEA
    original_reference_id: GO_REF:0000043
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:22190034
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:22190034
          supporting_text: Global landscape of HIV-human protein complexes.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:28683311
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:28683311
          supporting_text: Argonaute Utilization for miRNA Silencing Is 
            Determined by Phosphorylation-Dependent Recruitment of 
            LIM-Domain-Containing Proteins.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:33961781
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:33961781
          supporting_text: 2021 May 6. Dual proteome-scale networks reveal 
            cell-specific remodeling of the human interactome.
  - term:
      id: GO:0002076
      label: osteoblast development
    evidence_type: IEA
    original_reference_id: GO_REF:0000107
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0003714
      label: transcription corepressor activity
    evidence_type: IEA
    original_reference_id: GO_REF:0000107
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0045668
      label: negative regulation of osteoblast differentiation
    evidence_type: IEA
    original_reference_id: GO_REF:0000107
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0090090
      label: negative regulation of canonical Wnt signaling pathway
    evidence_type: IEA
    original_reference_id: GO_REF:0000107
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005654
      label: nucleoplasm
    evidence_type: IDA
    original_reference_id: GO_REF:0000052
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005925
      label: focal adhesion
    evidence_type: IDA
    original_reference_id: GO_REF:0000052
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0035278
      label: miRNA-mediated gene silencing by inhibition of translation
    evidence_type: IMP
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0005829
      label: cytosol
    evidence_type: TAS
    original_reference_id: Reactome:R-HSA-1234159
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005829
      label: cytosol
    evidence_type: TAS
    original_reference_id: Reactome:R-HSA-1234163
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005829
      label: cytosol
    evidence_type: TAS
    original_reference_id: Reactome:R-HSA-1234173
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005829
      label: cytosol
    evidence_type: TAS
    original_reference_id: Reactome:R-HSA-1234177
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0005829
      label: cytosol
    evidence_type: TAS
    original_reference_id: Reactome:R-HSA-1234183
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0003714
      label: transcription corepressor activity
    evidence_type: ISS
    original_reference_id: GO_REF:0000024
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0002076
      label: osteoblast development
    evidence_type: ISS
    original_reference_id: GO_REF:0000024
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0045668
      label: negative regulation of osteoblast differentiation
    evidence_type: ISS
    original_reference_id: GO_REF:0000024
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0090090
      label: negative regulation of canonical Wnt signaling pathway
    evidence_type: ISS
    original_reference_id: GO_REF:0000024
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
  - term:
      id: GO:0001666
      label: response to hypoxia
    evidence_type: IDA
    original_reference_id: PMID:22286099
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:22286099
          supporting_text: The LIMD1 protein bridges an association between the 
            prolyl hydroxylases and VHL to repress HIF-1 activity.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:18331720
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:18331720
          supporting_text: Ajuba LIM proteins are snail/slug corepressors 
            required for neural crest development in Xenopus.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:22286099
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:22286099
          supporting_text: The LIMD1 protein bridges an association between the 
            prolyl hydroxylases and VHL to repress HIF-1 activity.
  - term:
      id: GO:0045892
      label: negative regulation of DNA-templated transcription
    evidence_type: IMP
    original_reference_id: PMID:22286099
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:22286099
          supporting_text: The LIMD1 protein bridges an association between the 
            prolyl hydroxylases and VHL to repress HIF-1 activity.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:20303269
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20303269
          supporting_text: Mar 18. Ajuba LIM proteins are negative regulators of
            the Hippo signaling pathway.
  - term:
      id: GO:0005634
      label: nucleus
    evidence_type: IDA
    original_reference_id: PMID:18439753
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:18439753
          supporting_text: 2008 Apr 24. Cell cycle regulated phosphorylation of 
            LIMD1 in cell lines and expression in human breast cancers.
  - term:
      id: GO:0005737
      label: cytoplasm
    evidence_type: IDA
    original_reference_id: PMID:18439753
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:18439753
          supporting_text: 2008 Apr 24. Cell cycle regulated phosphorylation of 
            LIMD1 in cell lines and expression in human breast cancers.
  - term:
      id: GO:0005912
      label: adherens junction
    evidence_type: IDA
    original_reference_id: PMID:20303269
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20303269
          supporting_text: Mar 18. Ajuba LIM proteins are negative regulators of
            the Hippo signaling pathway.
  - term:
      id: GO:0005925
      label: focal adhesion
    evidence_type: IDA
    original_reference_id: PMID:18439753
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:18439753
          supporting_text: 2008 Apr 24. Cell cycle regulated phosphorylation of 
            LIMD1 in cell lines and expression in human breast cancers.
  - term:
      id: GO:0016310
      label: phosphorylation
    evidence_type: IDA
    original_reference_id: PMID:18439753
    review:
      summary: >-
        MISANNOTATION: LIMD1 is a LIM domain scaffold protein, NOT a kinase. PMID:18439753
        title is "Cell cycle regulated phosphorylation OF LIMD1" - LIMD1 is the SUBSTRATE
        being phosphorylated. Paper explicitly states "LIMD1 is phosphorylated during
        mitosis in HeLa cells". UniProt shows LIMD1 is phosphorylated at Ser-272,
        Ser-277,
        Ser-304, Ser-421, Ser-424. This is a substrate-as-enzyme misannotation.
      action: REMOVE
      supported_by:
        - reference_id: PMID:18439753
          supporting_text: 2008 Apr 24. Cell cycle regulated phosphorylation of 
            LIMD1 in cell lines and expression in human breast cancers.
  - term:
      id: GO:0035331
      label: negative regulation of hippo signaling
    evidence_type: IDA
    original_reference_id: PMID:20303269
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20303269
          supporting_text: Mar 18. Ajuba LIM proteins are negative regulators of
            the Hippo signaling pathway.
  - term:
      id: GO:0000932
      label: P-body
    evidence_type: IDA
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0016442
      label: RISC complex
    evidence_type: IDA
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0033962
      label: P-body assembly
    evidence_type: IMP
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0035195
      label: miRNA-mediated post-transcriptional gene silencing
    evidence_type: IMP
    original_reference_id: PMID:20616046
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:20616046
          supporting_text: LIM-domain proteins, LIMD1, Ajuba, and WTIP are 
            required for microRNA-mediated gene silencing.
  - term:
      id: GO:0005515
      label: protein binding
    evidence_type: IPI
    original_reference_id: PMID:15542589
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:15542589
          supporting_text: LIM domains-containing protein 1 (LIMD1), a tumor 
            suppressor encoded at chromosome 3p21.3, binds pRB and represses 
            E2F-driven transcription.
  - term:
      id: GO:0005634
      label: nucleus
    evidence_type: IDA
    original_reference_id: PMID:15542589
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:15542589
          supporting_text: LIM domains-containing protein 1 (LIMD1), a tumor 
            suppressor encoded at chromosome 3p21.3, binds pRB and represses 
            E2F-driven transcription.
  - term:
      id: GO:0005737
      label: cytoplasm
    evidence_type: IDA
    original_reference_id: PMID:15542589
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:15542589
          supporting_text: LIM domains-containing protein 1 (LIMD1), a tumor 
            suppressor encoded at chromosome 3p21.3, binds pRB and represses 
            E2F-driven transcription.
  - term:
      id: GO:0045892
      label: negative regulation of DNA-templated transcription
    evidence_type: IDA
    original_reference_id: PMID:15542589
    review:
      summary: 'TODO: Review this GOA annotation'
      action: PENDING
      supported_by:
        - reference_id: PMID:15542589
          supporting_text: LIM domains-containing protein 1 (LIMD1), a tumor 
            suppressor encoded at chromosome 3p21.3, binds pRB and represses 
            E2F-driven transcription.
references:
  - id: GO_REF:0000024
    title: Manual transfer of experimentally-verified manual GO annotation data 
      to orthologs by curator judgment of sequence similarity
    findings: []
  - id: GO_REF:0000033
    title: Annotation inferences using phylogenetic trees
    findings: []
  - id: GO_REF:0000043
    title: Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword 
      mapping
    findings: []
  - id: GO_REF:0000044
    title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular 
      Location vocabulary mapping, accompanied by conservative changes to GO 
      terms applied by UniProt
    findings: []
  - id: GO_REF:0000052
    title: Gene Ontology annotation based on curation of immunofluorescence data
    findings: []
  - id: GO_REF:0000107
    title: Automatic transfer of experimentally verified manual GO annotation 
      data to orthologs using Ensembl Compara
    findings: []
  - id: GO_REF:0000117
    title: Electronic Gene Ontology annotations created by ARBA machine learning
      models
    findings: []
  - id: GO_REF:0000120
    title: Combined Automated Annotation using Multiple IEA Methods
    findings: []
  - id: PMID:15542589
    title: LIM domains-containing protein 1 (LIMD1), a tumor suppressor encoded 
      at chromosome 3p21.3, binds pRB and represses E2F-driven transcription.
    findings: []
  - id: PMID:18331720
    title: Ajuba LIM proteins are snail/slug corepressors required for neural 
      crest development in Xenopus.
    findings: []
  - id: PMID:18439753
    title: Cell cycle regulated phosphorylation of LIMD1 in cell lines and 
      expression in human breast cancers.
    findings: []
  - id: PMID:20303269
    title: Ajuba LIM proteins are negative regulators of the Hippo signaling 
      pathway.
    findings: []
  - id: PMID:20616046
    title: LIM-domain proteins, LIMD1, Ajuba, and WTIP are required for 
      microRNA-mediated gene silencing.
    findings: []
  - id: PMID:22190034
    title: Global landscape of HIV-human protein complexes.
    findings: []
  - id: PMID:22286099
    title: The LIMD1 protein bridges an association between the prolyl 
      hydroxylases and VHL to repress HIF-1 activity.
    findings: []
  - id: PMID:28683311
    title: Argonaute Utilization for miRNA Silencing Is Determined by 
      Phosphorylation-Dependent Recruitment of LIM-Domain-Containing Proteins.
    findings: []
  - id: PMID:33961781
    title: Dual proteome-scale networks reveal cell-specific remodeling of the 
      human interactome.
    findings: []
  - id: Reactome:R-HSA-1234159
    title: Proteasome proteolyzes ub-HIF-alpha
    findings: []
  - id: Reactome:R-HSA-1234163
    title: Cytosolic VBC complex ubiquitinylates hydroxyprolyl-HIF-alpha
    findings: []
  - id: Reactome:R-HSA-1234173
    title: Cytosolic PHD2,3 hydroxylates proline residues on HIF3A
    findings: []
  - id: Reactome:R-HSA-1234177
    title: Cytosolic PHD2,3 hydroxylates proline residues on HIF1A
    findings: []
  - id: Reactome:R-HSA-1234183
    title: Cytosolic VHL:EloB,C:CUL2:RBX1 binds hydroxyprolyl-HIF-alpha
    findings: []