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lim-9 LIM domain protein;LIM zinc-binding domain-containing protein;Protein espinas [ Caenorhabditis elegans ]

Gene ID: 3565712, updated on 5-May-2024

Summary

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Gene symbol
lim-9
Gene description
LIM domain protein;LIM zinc-binding domain-containing protein;Protein espinas
Primary source
WormBase:WBGene00006407
Locus tag
CELE_F25H5.1
See related
AllianceGenome:WB:WBGene00006407
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables protein domain specific binding activity. Located in M band. Is expressed in several structures, including body wall musculature; excretory canal; non-striated muscle; spermatheca; and vulva. Orthologous to several human genes including FHL2 (four and a half LIM domains 2). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:
chromosome: I
Exon count:
20
Sequence:
Chromosome: I; NC_003279.8 (9181810..9220728, complement)

Chromosome I - NC_003279.8Genomic Context describing neighboring genes Neighboring gene Plasma membrane proteolipid 3 Neighboring gene ncRNA Neighboring gene Transmembrane protein Neighboring gene ncRNA Neighboring gene Calponin-homology (CH) domain-containing protein Neighboring gene BPL/LPL catalytic domain-containing protein Neighboring gene Gamma-tubulin interacting protein 2

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. A LIM-9 (FHL)/SCPL-1 (SCP) complex interacts with the C-terminal protein kinase regions of UNC-89 (obscurin) in Caenorhabditis elegans muscle. Xiong G, et al. J Mol Biol, 2009 Mar 6. PMID 19244614, Free PMC Article
  2. ZYX-1, the unique zyxin protein of Caenorhabditis elegans, is involved in dystrophin-dependent muscle degeneration. Lecroisey C, et al. Mol Biol Cell, 2013 Apr. PMID 23427270, Free PMC Article
  3. Two LIM domain proteins and UNC-96 link UNC-97/pinch to myosin thick filaments in Caenorhabditis elegans muscle. Qadota H, et al. Mol Biol Cell, 2007 Nov. PMID 17761533, Free PMC Article
  4. CPNA-1, a copine domain protein, is located at integrin adhesion sites and is required for myofilament stability in Caenorhabditis elegans. Warner A, et al. Mol Biol Cell, 2013 Mar. PMID 23283987, Free PMC Article
  5. Protein phosphatase 2A is crucial for sarcomere organization in Caenorhabditis elegans striated muscle. Qadota H, et al. Mol Biol Cell, 2018 Aug 15. PMID 29949401, Free PMC Article

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SCPL-1 interacts with LIM-9 (FHL), a protein that we first discovered as an interactor of UNC-97 (PINCH) and UNC-96, components of an M-line costamere in nematode muscle.
    Title: A LIM-9 (FHL)/SCPL-1 (SCP) complex interacts with the C-terminal protein kinase regions of UNC-89 (obscurin) in Caenorhabditis elegans muscle.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein domain specific binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in M band IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in Z disc IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
LIM domain protein;LIM zinc-binding domain-containing protein;Protein espinas
NP_001021408.2
  • Confirmed by transcript evidence
NP_001021409.2
  • Confirmed by transcript evidence
NP_001025228.2
  • Confirmed by transcript evidence
NP_001300394.1
  • Confirmed by transcript evidence
NP_001300395.1
  • Confirmed by transcript evidence
NP_001300420.1
  • Confirmed by transcript evidence
NP_001364650.1
  • Confirmed by transcript evidence
NP_001364651.1
  • Confirmed by transcript evidence

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

  1. NC_003279.8 Reference assembly

    Range
    9181810..9220728 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001377616.3 → NP_001364651.1  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    G5EF39
    Conserved Domains (7) summary
    cd09341
    Location:349 → 404
    LIM2_Testin_like; The second LIM domain of Testin-like family
    cd09414
    Location:286 → 343
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09421
    Location:407 → 465
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:472 → 525
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:533 → 584
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:592 → 647
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:192 → 275
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  2. NM_001377617.3 → NP_001364650.1  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    G5EEA4
    Conserved Domains (7) summary
    cd09341
    Location:257 → 312
    LIM2_Testin_like; The second LIM domain of Testin-like family
    cd09414
    Location:194 → 251
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09421
    Location:315 → 373
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:380 → 433
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:441 → 492
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:500 → 555
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:100 → 183
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  3. NM_001313491.3 → NP_001300420.1  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A0K3AQP4
    Conserved Domains (3) summary
    cd09430
    Location:51 → 102
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:110 → 165
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cl02475
    Location:1 → 43
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

  4. NM_001313465.3 → NP_001300394.1  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A0K3ATK8
    Conserved Domains (7) summary
    cd09341
    Location:456 → 511
    LIM2_Testin_like; The second LIM domain of Testin-like family
    cd09414
    Location:393 → 450
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09421
    Location:514 → 572
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:579 → 632
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:640 → 691
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:699 → 754
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:299 → 382
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  5. NM_001030057.5 → NP_001025228.2  LIM domain protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    G5EDJ5
    Conserved Domains (7) summary
    cd09414
    Location:249 → 306
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09417
    Location:312 → 367
    LIM2_LIMPETin_like; The second LIM domain of protein LIMPETin and related proteins
    cd09421
    Location:370 → 428
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:435 → 488
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:496 → 547
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:555 → 610
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:155 → 238
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  6. NM_001026238.6 → NP_001021409.2  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    O17833
    Conserved Domains (7) summary
    cd09414
    Location:116 → 173
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09417
    Location:179 → 234
    LIM2_LIMPETin_like; The second LIM domain of protein LIMPETin and related proteins
    cd09421
    Location:237 → 295
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:302 → 355
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:363 → 414
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:422 → 477
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:36 → 105
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  7. NM_001313466.5 → NP_001300395.1  Protein espinas [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A0K3AQM0
    Conserved Domains (7) summary
    cd09341
    Location:486 → 541
    LIM2_Testin_like; The second LIM domain of Testin-like family
    cd09414
    Location:423 → 480
    LIM1_LIMPETin; The first LIM domain of protein LIMPETin
    cd09421
    Location:544 → 602
    LIM3_LIMPETin; The third LIM domain of protein LIMPETin
    cd09425
    Location:609 → 662
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:670 → 721
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:729 → 784
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cd09830
    Location:329 → 412
    PET_LIMPETin_LIM-9; The PET domain of protein LIMPETin and LIM-9

  8. NM_001026237.7 → NP_001021408.2  LIM zinc-binding domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q3S1I9
    Conserved Domains (4) summary
    cd09425
    Location:106 → 159
    LIM4_LIMPETin; The fourth LIM domain of protein LIMPETin
    cd09430
    Location:167 → 218
    LIM5_LIMPETin; The fifth LIM domain of protein LIMPETin
    cd09432
    Location:226 → 281
    LIM6_LIMPETin; The sixth LIM domain of protein LIMPETin
    cl02475
    Location:41 → 99
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
Nucleotide Protein
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