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LIMK1 LIM domain kinase 1 [ Homo sapiens (human) ]

Gene ID: 3984, updated on 1-Aug-2020

Summary

Official Symbol
LIMK1provided by HGNC
Official Full Name
LIM domain kinase 1provided by HGNC
Primary source
HGNC:HGNC:6613
See related
Ensembl:ENSG00000106683 MIM:601329
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LIMK; LIMK-1
Summary
There are approximately 40 known eukaryotic LIM proteins, so named for the LIM domains they contain. LIM domains are highly conserved cysteine-rich structures containing 2 zinc fingers. Although zinc fingers usually function by binding to DNA or RNA, the LIM motif probably mediates protein-protein interactions. LIM kinase-1 and LIM kinase-2 belong to a small subfamily with a unique combination of 2 N-terminal LIM motifs and a C-terminal protein kinase domain. LIMK1 is a serine/threonine kinase that regulates actin polymerization via phosphorylation and inactivation of the actin binding factor cofilin. This protein is ubiquitously expressed during development and plays a role in many cellular processes associated with cytoskeletal structure. This protein also stimulates axon growth and may play a role in brain development. LIMK1 hemizygosity is implicated in the impaired visuospatial constructive cognition of Williams syndrome. Alternative splicing results in multiple transcript variants encoding distinct isoforms.[provided by RefSeq, Feb 2011]
Expression
Ubiquitous expression in brain (RPKM 15.7), spleen (RPKM 11.2) and 25 other tissues See more
Orthologs

Genomic context

See LIMK1 in Genome Data Viewer
Location:
7q11.23
Exon count:
17
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (74083804..74122525)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (73498107..73536855)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene transmembrane protein 270 Neighboring gene Sharpr-MPRA regulatory region 6518 Neighboring gene elastin Neighboring gene ELN antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 11846 Neighboring gene eukaryotic translation initiation factor 4H Neighboring gene microRNA 590

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Copy number response

Description
Copy number response
Haploinsufficency

No evidence available (Last evaluated (2012-08-22)

ClinGen Genome Curation Page
Triplosensitivity

No evidence available (Last evaluated (2012-08-22)

ClinGen Genome Curation Page

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env CCR5 expression inhibits HIV-1 gp120-induced LIMK1 activation and cofilin phosphorylation in CD4/CXCR4 expressing 293T cells PubMed
env The N-terminal leucine-rich repeat fragment of Slit2 inhibits HIV-1 gp120-induced phosphorylation of both LIMK1 and cofilin PubMed
env HIV-1 infection and gp120 activates LIMK1/2 by increased levels of LIMK1/2 phosphorylation. Gp120-mediated LIMK activation is dependent on the Rack-PAK-LIMK pathway through phosphorylation of PAK2 and Rac1 PubMed
env Filamin-A-dependent activation of the RhoA-ROCK-LIMK-cofilin pathway is a major event in HIV-1 gp120-induced receptor clustering PubMed
Nef nef HIV-1 Nef-induced LIMK1 activation and CFL1 phosphorylation are required for Nef-mediated inhibition of retinoid receptor function PubMed
Tat tat Both HIV-1 Tat 47-59 and FITC-labeled Tat 47-59 peptides upregulate gene expression of LIM domain kinase 1 (LIMK1) in U-937 macrophages PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
heat shock protein binding IDA
Inferred from Direct Assay
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase activity NAS
Non-traceable Author Statement
more info
PubMed 
protein serine/threonine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein serine/threonine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein serine/threonine kinase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
Fc-gamma receptor signaling pathway involved in phagocytosis TAS
Traceable Author Statement
more info
 
Rho protein signal transduction TAS
Traceable Author Statement
more info
PubMed 
actin cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
nervous system development TAS
Traceable Author Statement
more info
PubMed 
positive regulation of actin filament bundle assembly IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of axon extension ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of stress fiber assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
focal adhesion IEA
Inferred from Electronic Annotation
more info
 
lamellipodium ISS
Inferred from Sequence or Structural Similarity
more info
 
membrane IEA
Inferred from Electronic Annotation
more info
 
neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron projection ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear speck IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
LIM domain kinase 1
Names
LIM motif-containing protein kinase
NP_001191355.1
NP_002305.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_008129.1 RefSeqGene

    Range
    4979..43700
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204426.2NP_001191355.1  LIM domain kinase 1 isoform 2

    See identical proteins and their annotated locations for NP_001191355.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks multiple exons at the 5' end and uses a different start codon, compared to variant 1. This variant encodes an isoform (2) with a shorter and distinct N-terminus that lacks one of two LIM zinc-binding domains, compared to isoform 1.
    Source sequence(s)
    AK300382, AW016257, D26309
    Consensus CDS
    CCDS56491.1
    UniProtKB/Swiss-Prot
    P53667
    Related
    ENSP00000444452.1, ENST00000538333.3
    Conserved Domains (4) summary
    cd09464
    Location:50104
    LIM2_LIMK1; The second LIM domain of LIMK1 (LIM domain Kinase 1)
    cd14221
    Location:311577
    STKc_LIMK1; Catalytic domain of the Serine/Threonine Kinase, LIM domain kinase 1
    pfam00595
    Location:131221
    PDZ; PDZ domain (Also known as DHR or GLGF)
    cl02475
    Location:1743
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  2. NM_002314.4NP_002305.1  LIM domain kinase 1 isoform 1

    See identical proteins and their annotated locations for NP_002305.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC005056, AW016257, D26309
    Consensus CDS
    CCDS5563.1
    UniProtKB/Swiss-Prot
    P53667
    Related
    ENSP00000336740.2, ENST00000336180.7
    Conserved Domains (4) summary
    cd09462
    Location:577
    LIM1_LIMK1; The first LIM domain of LIMK1 (LIM domain Kinase 1)
    cd14221
    Location:345611
    STKc_LIMK1; Catalytic domain of the Serine/Threonine Kinase, LIM domain kinase 1
    pfam00595
    Location:165255
    PDZ; PDZ domain (Also known as DHR or GLGF)
    cl02475
    Location:84138
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    74083804..74122525
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_016735.1: Suppressed sequence

    Description
    NM_016735.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
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