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PDLIM1 (PDZ and LIM domain 1)

Identity

Alias (NCBI)CLIM1
CLP-36
CLP36
HEL-S-112
hCLIM1
HGNC (Hugo) PDLIM1
HGNC Alias symbCLP-36
hCLIM1
CLP36
HGNC Alias namecarboxyl terminal LIM domain protein 1
 elfin
HGNC Previous nameCLIM1
HGNC Previous namePDZ and LIM domain 1 (elfin)
LocusID (NCBI) 9124
Atlas_Id 55262
Location 10q23.33  [Link to chromosome band 10q23]
Location_base_pair Starts at 95237573 and ends at 95291003 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
KCNN3 (1q21.3) / PDLIM1 (10q23.33)PDLIM1 (10q23.33) / PPP1CB (2p23.2)PDLIM1 (10q23.33) / SORBS1 (10q24.1)
PDLIM1 10q23.33 / SORBS1 10q24.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 



External links

 

Nomenclature
HGNC (Hugo)PDLIM1   2067
Cards
Entrez_Gene (NCBI)PDLIM1    PDZ and LIM domain 1
AliasesCLIM1; CLP-36; CLP36; HEL-S-112; 
hCLIM1
GeneCards (Weizmann)PDLIM1
Ensembl hg19 (Hinxton)ENSG00000107438 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000107438 [Gene_View]  ENSG00000107438 [Sequence]  chr10:95237573-95291003 [Contig_View]  PDLIM1 [Vega]
ICGC DataPortalENSG00000107438
TCGA cBioPortalPDLIM1
AceView (NCBI)PDLIM1
Genatlas (Paris)PDLIM1
SOURCE (Princeton)PDLIM1
Genetics Home Reference (NIH)PDLIM1
Genomic and cartography
GoldenPath hg38 (UCSC)PDLIM1  -     chr10:95237573-95291003 -  10q23.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDLIM1  -     10q23.33   [Description]    (hg19-Feb_2009)
GoldenPathPDLIM1 - 10q23.33 [CytoView hg19]  PDLIM1 - 10q23.33 [CytoView hg38]
ImmunoBaseENSG00000107438
Genome Data Viewer NCBIPDLIM1 [Mapview hg19]  
OMIM605900   
Gene and transcription
Genbank (Entrez)AJ310549 AK091847 AK314792 BC000915 BC018755
RefSeq transcript (Entrez)NM_020992
Consensus coding sequences : CCDS (NCBI)PDLIM1
Gene ExpressionPDLIM1 [ NCBI-GEO ]   PDLIM1 [ EBI - ARRAY_EXPRESS ]   PDLIM1 [ SEEK ]   PDLIM1 [ MEM ]
Gene Expression Viewer (FireBrowse)PDLIM1 [ Firebrowse - Broad ]
GenevisibleExpression of PDLIM1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9124
GTEX Portal (Tissue expression)PDLIM1
Human Protein AtlasENSG00000107438-PDLIM1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO00151   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO00151  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO00151
PhosPhoSitePlusO00151
Domaine pattern : Prosite (Expaxy)LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)    PDZ (PS50106)   
Domains : Interpro (EBI)DUF4749    PDLIM1    PDZ    PDZ_sf    Zasp-like_motif    Znf_LIM   
Domain families : Pfam (Sanger)DUF4749 (PF15936)    LIM (PF00412)    PDZ (PF00595)   
Domain families : Pfam (NCBI)pfam15936    pfam00412    pfam00595   
Domain families : Smart (EMBL)LIM (SM00132)  PDZ (SM00228)  ZM (SM00735)  
Conserved Domain (NCBI)PDLIM1
PDB (RSDB)1X62    2PKT   
PDB Europe1X62    2PKT   
PDB (PDBSum)1X62    2PKT   
PDB (IMB)1X62    2PKT   
Structural Biology KnowledgeBase1X62    2PKT   
SCOP (Structural Classification of Proteins)1X62    2PKT   
CATH (Classification of proteins structures)1X62    2PKT   
SuperfamilyO00151
AlphaFold pdb e-kbO00151   
Human Protein Atlas [tissue]ENSG00000107438-PDLIM1 [tissue]
HPRD09326
Protein Interaction databases
DIP (DOE-UCLA)O00151
IntAct (EBI)O00151
BioGRIDPDLIM1
STRING (EMBL)PDLIM1
ZODIACPDLIM1
Ontologies - Pathways
QuickGOO00151
Ontology : AmiGOresponse to hypoxia  stress fiber  stress fiber  transcription coactivator activity  actin binding  actin binding  protein binding  transcription regulator complex  cytoplasm  cytoskeleton  adherens junction  adherens junction  focal adhesion  regulation of transcription by RNA polymerase II  response to oxidative stress  heart development  fibroblast migration  maintenance of cell polarity  Z disc  Z disc  actin cytoskeleton organization  actin cytoskeleton organization  establishment or maintenance of actin cytoskeleton polarity  filamentous actin  stress fiber assembly  positive regulation of transcription, DNA-templated  metal ion binding  muscle alpha-actinin binding  muscle structure development  cell-cell adhesion  cadherin binding involved in cell-cell adhesion  
Ontology : EGO-EBIresponse to hypoxia  stress fiber  stress fiber  transcription coactivator activity  actin binding  actin binding  protein binding  transcription regulator complex  cytoplasm  cytoskeleton  adherens junction  adherens junction  focal adhesion  regulation of transcription by RNA polymerase II  response to oxidative stress  heart development  fibroblast migration  maintenance of cell polarity  Z disc  Z disc  actin cytoskeleton organization  actin cytoskeleton organization  establishment or maintenance of actin cytoskeleton polarity  filamentous actin  stress fiber assembly  positive regulation of transcription, DNA-templated  metal ion binding  muscle alpha-actinin binding  muscle structure development  cell-cell adhesion  cadherin binding involved in cell-cell adhesion  
NDEx NetworkPDLIM1
Atlas of Cancer Signalling NetworkPDLIM1
Wikipedia pathwaysPDLIM1
Orthology - Evolution
OrthoDB9124
GeneTree (enSembl)ENSG00000107438
Phylogenetic Trees/Animal Genes : TreeFamPDLIM1
Homologs : HomoloGenePDLIM1
Homology/Alignments : Family Browser (UCSC)PDLIM1
Gene fusions - Rearrangements
Fusion : MitelmanPDLIM1/SORBS1 [10q23.33/10q24.1]  
Fusion : QuiverPDLIM1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDLIM1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDLIM1
dbVarPDLIM1
ClinVarPDLIM1
MonarchPDLIM1
1000_GenomesPDLIM1 
Exome Variant ServerPDLIM1
GNOMAD BrowserENSG00000107438
Varsome BrowserPDLIM1
ACMGPDLIM1 variants
VarityO00151
Genomic Variants (DGV)PDLIM1 [DGVbeta]
DECIPHERPDLIM1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDLIM1 
Mutations
ICGC Data PortalPDLIM1 
TCGA Data PortalPDLIM1 
Broad Tumor PortalPDLIM1
OASIS PortalPDLIM1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDLIM1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DPDLIM1
Mutations and Diseases : HGMDPDLIM1
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaPDLIM1
DgiDB (Drug Gene Interaction Database)PDLIM1
DoCM (Curated mutations)PDLIM1
CIViC (Clinical Interpretations of Variants in Cancer)PDLIM1
Cancer3DPDLIM1
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605900   
Orphanet
DisGeNETPDLIM1
MedgenPDLIM1
Genetic Testing Registry PDLIM1
NextProtO00151 [Medical]
GENETestsPDLIM1
Target ValidationPDLIM1
Huge Navigator PDLIM1 [HugePedia]
ClinGenPDLIM1
Clinical trials, drugs, therapy
MyCancerGenomePDLIM1
Protein Interactions : CTDPDLIM1
Pharm GKB GenePA33158
PharosO00151
Clinical trialPDLIM1
Miscellaneous
canSAR (ICR)PDLIM1
HarmonizomePDLIM1
DataMed IndexPDLIM1
Probes
Litterature
PubMed67 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXPDLIM1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Mon Oct 4 15:24:49 CEST 2021

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