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PDLIM1 PDZ and LIM domain 1 [ Homo sapiens (human) ]

Gene ID: 9124, updated on 7-Dec-2018

Summary

Official Symbol
PDLIM1provided by HGNC
Official Full Name
PDZ and LIM domain 1provided by HGNC
Primary source
HGNC:HGNC:2067
See related
Ensembl:ENSG00000107438 MIM:605900
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
CLIM1; CLP36; CLP-36; hCLIM1; HEL-S-112
Summary
This gene encodes a member of the enigma protein family. The protein contains two protein interacting domains, a PDZ domain at the amino terminal end and one to three LIM domains at the carboxyl terminal. It is a cytoplasmic protein associated with the cytoskeleton. The protein may function as an adapter to bring other LIM-interacting proteins to the cytoskeleton. Pseudogenes associated with this gene are located on chromosomes 3, 14 and 17. [provided by RefSeq, Oct 2012]
Expression
Ubiquitous expression in small intestine (RPKM 111.6), colon (RPKM 111.5) and 24 other tissues See more
Orthologs

Genomic context

See PDLIM1 in Genome Data Viewer
Location:
10q23.33
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 10 NC_000010.11 (95237568..95291148, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (96997325..97050905, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984257 Neighboring gene pro-apoptotic WT1 regulator pseudogene 1 Neighboring gene acyl-CoA synthetase medium chain family member 6 Neighboring gene sorbin and SH3 domain containing 1 Neighboring gene VISTA enhancer hs2353 Neighboring gene ribosomal protein S3a pseudogene 36

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 FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cadherin binding involved in cell-cell adhesion HDA PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
 
positive regulation of nucleic acid-templated transcription IEA
Inferred from Electronic Annotation
more info
 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to hypoxia IEA
Inferred from Electronic Annotation
more info
 
response to oxidative stress TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
Z disc IEA
Inferred from Electronic Annotation
more info
 
cell-cell adherens junction HDA PubMed 
cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
focal adhesion HDA PubMed 
transcription factor complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
PDZ and LIM domain protein 1
Names
LIM domain protein CLP-36
carboxyl terminal LIM domain protein 1
elfin
epididymis secretory protein Li 112

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.

mRNA and Protein(s)

  1. NM_020992.4NP_066272.1  PDZ and LIM domain protein 1

    See identical proteins and their annotated locations for NP_066272.1

    Status: REVIEWED

    Source sequence(s)
    AL160288, BC000915
    Consensus CDS
    CCDS7441.1
    UniProtKB/Swiss-Prot
    O00151
    UniProtKB/TrEMBL
    V9HW92
    Related
    ENSP00000360305.3, ENST00000329399.6
    Conserved Domains (3) summary
    cd09448
    Location:260311
    LIM_CLP36; This family represents the LIM domain of CLP36
    cd00992
    Location:1082
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam15936
    Location:138230
    DUF4749; Domain of unknown function (DUF4749)

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p12 Primary Assembly

    Range
    95237568..95291148 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011540330.1XP_011538632.1  PDZ and LIM domain protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011538632.1

    Conserved Domains (2) summary
    cd09448
    Location:157208
    LIM_CLP36; This family represents the LIM domain of CLP36
    pfam15936
    Location:35127
    DUF4749; Domain of unknown function (DUF4749)
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