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

Summary

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Official Symbol: lim-9
Official Full Name: 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, Dec 2024]
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Genomic context

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See lim-9 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 20

Sequence:: Chromosome: I; NC_003279.8 (9181810..9220728, complement)

Chromosome I - NC_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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

F25H5.1 (e-PCR)
- UniSTS:319905

C45G3.2a (e-PCR)
- UniSTS:321990

STS1-141 (e-PCR)
- UniSTS:241627

Homology

Orthologs from OrthoDB

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

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

NC_003279.8 Reference assembly

Range

9181810..9220728 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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
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
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
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
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