LDB1 (LIM domain binding 1)

2006-11-01   Takeshi Setogawa , Testu Akiyama 

Laboratory of Molecular and Genetic Information, Institute for Molecular and Cellular Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan

Identity

HGNC
LOCATION
10q24.32
LOCUSID
ALIAS
CLIM-2,CLIM2,LDB-1,NLI
FUSION GENES

DNA/RNA

Description

7kb; 11exons

Transcription

2292 nucleotides mRNA

Proteins

Description

375 amino acids; 42.8 kDa protein

Expression

Widely expressed

Localisation

Nuclear

Function

LDB1 is a nuclear protein that contains an N-terminal dimerization domain and a C-terminal LIM interaction domain (LID). LDB1 binds to LIM-homeodomain (LIM-HD) and LIM-only (LMO) proteins. It acts as an adaptor protein that mediates interactions between different classes of transcription factors and their cofactors. LDB1 forms a complex with LKB1, LMO4, and GATA-6. The tumor suppressor LKB1is mutated in Peutz Jeghers syndrome and various sporadic cancers. A complex containing LDB1, LKB1, LMO4, and GATA-6 induces cyclin-dependent kinase inhibitor p21 expression. Targeted deletion of the Ldb1 gene in mice displays multiple developmental defects that reveal a requirement of Ldb1 gene during normal development.

Implicated in

Entity name
Oral squamous cell carcinoma
Oncogenesis
LDB1 and LMO4 are frequently detected in less-differentiated and metastasized squamous carcinoma, and overexpressed at the carcinoma invasive front.

Bibliography

Pubmed IDLast YearTitleAuthors
89188781996Interactions of the LIM-domain-binding factor Ldb1 with LIM homeodomain proteins.Agulnick AD et al
91928661997A family of LIM domain-associated cofactors confer transcriptional synergism between LIM and Otx homeodomain proteins.Bach I et al
123817862002Ssdp proteins interact with the LIM-domain-binding protein Ldb1 to regulate development.Chen L et al
93156271997Functional analysis of the nuclear LIM domain interactor NLI.Jurata LW et al
146472072003LIM-domain-binding protein 1: a multifunctional cofactor that interacts with diverse proteins.Matthews JM et al
127719192003The LIM-only protein, LMO4, and the LIM domain-binding protein, LDB1, expression in squamous cell carcinomas of the oral cavity.Mizunuma H et al
124905562003Functional ablation of the mouse Ldb1 gene results in severe patterning defects during gastrulation.Mukhopadhyay M et al
165806342006The tumor suppressor LKB1 induces p21 expression in collaboration with LMO4, GATA-6, and Ldb1.Setogawa T et al
93910901997The LIM-domain binding protein Ldb1 and its partner LMO2 act as negative regulators of erythroid differentiation.Visvader JE et al

Other Information

Locus ID:

NCBI: 8861
MIM: 603451
HGNC: 6532
Ensembl: ENSG00000198728

Variants:

dbSNP: 8861
ClinVar: 8861
TCGA: ENSG00000198728
COSMIC: LDB1

RNA/Proteins

Gene IDTranscript IDUniprot
ENSG00000198728ENST00000361198Q86U70
ENSG00000198728ENST00000425280Q86U70

Expression (GTEx)

0
50
100
150
200
250

Pathways

PathwaySourceExternal ID
Transcriptional misregulation in cancerKEGGko05202
Transcriptional misregulation in cancerKEGGhsa05202

Protein levels (Protein atlas)

Not detected
Low
Medium
High

References

Pubmed IDYearTitleCitations
163854512006A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.69
238125882013A stable transcription factor complex nucleated by oligomeric AML1-ETO controls leukaemogenesis.49
123817862002Ssdp proteins interact with the LIM-domain-binding protein Ldb1 to regulate development.32
185839622008Implementing the LIM code: the structural basis for cell type-specific assembly of LIM-homeodomain complexes.31
220101042011Distinct Ldb1/NLI complexes orchestrate γ-globin repression and reactivation through ETO2 in human adult erythroid cells.22
279412462017LIM domain-binding 1 maintains the terminally differentiated state of pancreatic β cells.22
179100692008Assembly of the oncogenic DNA-binding complex LMO2-Ldb1-TAL1-E12.14
250790732014The co-factor of LIM domains (CLIM/LDB/NLI) maintains basal mammary epithelial stem cells and promotes breast tumorigenesis.6
264958682015SSBP3 Interacts With Islet-1 and Ldb1 to Impact Pancreatic β-Cell Target Genes.6
204473792010Transcription intermediary factor 1gamma decreases protein expression of the transcriptional cofactor, LIM-domain-binding 1.5

Citation

Takeshi Setogawa ; Testu Akiyama

LDB1 (LIM domain binding 1)

Atlas Genet Cytogenet Oncol Haematol. 2006-11-01

Online version: http://atlasgeneticsoncology.org/gene/41135/ldb1