Ldb1

LIM domain binding 1

Rendering based on PDB 2XJY.

Available structures

Ortholog search: PDBe, RCSB

List of PDB id codes
2XJY, 2XJZ

Identifiers

Symbols

LDB1; CLIM2; NLI

External IDs

OMIM: 603451 MGI: 894762 HomoloGene: 2891 GeneCards: LDB1 Gene

Gene Ontology
Molecular function	• RNA polymerase II activating transcription factor binding • enhancer sequence-specific DNA binding • DNA binding • chromatin binding • transcription corepressor activity • enzyme binding • LIM domain binding • LIM domain binding • protein homodimerization activity • protein self-association
Cellular component	• nuclear chromatin • nucleus • transcription factor complex • cell-cell junction • protein complex
Biological process	• transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery • gastrulation with mouth forming second • hair follicle development • transcription, DNA-dependent • regulation of transcription, DNA-dependent • multicellular organismal development • anterior/posterior axis specification • epithelial structure maintenance • Wnt receptor signaling pathway • cerebellum development • cerebellar Purkinje cell differentiation • cellular component assembly • neuron differentiation • regulation of transcription elongation, DNA-dependent • somatic stem cell maintenance • histone H3-K4 acetylation • negative regulation of erythrocyte differentiation • positive regulation of cell adhesion • negative regulation of transcription, DNA-dependent • positive regulation of transcription from RNA polymerase II promoter • positive regulation of transcription from RNA polymerase II promoter • positive regulation of hemoglobin biosynthetic process • head development
Sources: Amigo / QuickGO

RNA expression pattern

More reference expression data

Orthologs

Species

Human

Mouse

RefSeq (mRNA)

RefSeq (protein)

Location (UCSC)

Chr 10:
103.87 – 103.88 Mb

Chr 19:
46.11 – 46.12 Mb

PubMed search

[1]

[2]

LIM domain-binding protein 1 is a protein that in humans is encoded by the LDB1 gene.^[1]^[2]^[3]

Interactions [link]

LDB1 has been shown to interact with LMO4,^[4]^[5] TCF3,^[6] TAL1^[6] and CBFA2T3.^[6]

References [link]

^ Yamashita T, Agulnick AD, Copeland NG, Gilbert DJ, Jenkins NA, Westphal H (Apr 1998). "Genomic structure and chromosomal localization of the mouse LIM domain-binding protein 1 gene, Ldb1". Genomics 48 (1): 87–92. DOI:10.1006/geno.1997.5163. PMID 9503020.
^ Semina EV, Altherr MR, Murray JC (Dec 1998). "Cloning and chromosomal localization of two novel human genes encoding LIM-domain binding factors CLIM1 and CLIM2/LDB1/NLI". Mamm Genome 9 (11): 921–4. DOI:10.1007/s003359900899. PMID 9799849.
^ "Entrez Gene: LDB1 LIM domain binding 1". https://www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=ShowDetailView&TermToSearch=8861.
^ Sutherland, Kate D; Visvader Jane E, Choong David Y H, Sum Eleanor Y M, Lindeman Geoffrey J, Campbell Ian G (Oct. 2003). "Mutational analysis of the LMO4 gene, encoding a BRCA1-interacting protein, in breast carcinomas". Int. J. Cancer (United States) 107 (1): 155–8. DOI:10.1002/ijc.11343. ISSN 0020-7136. PMID 12925972.
^ Deane, Janet E; Mackay Joel P, Kwan Ann H Y, Sum Eleanor Y M, Visvader Jane E, Matthews Jacqueline M (May. 2003). "Structural basis for the recognition of ldb1 by the N-terminal LIM domains of LMO2 and LMO4". EMBO J. (England) 22 (9): 2224–33. DOI:10.1093/emboj/cdg196. ISSN 0261-4189. PMC 156068. PMID 12727888. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=156068.
^ ^a ^b ^c Goardon, Nicolas; Lambert Julie A, Rodriguez Patrick, Nissaire Philippe, Herblot Sabine, Thibault Pierre, Dumenil Dominique, Strouboulis John, Romeo Paul-Henri, Hoang Trang (Jan. 2006). "ETO2 coordinates cellular proliferation and differentiation during erythropoiesis". EMBO J. (England) 25 (2): 357–66. DOI:10.1038/sj.emboj.7600934. ISSN 0261-4189. PMC 1383517. PMID 16407974. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=1383517.

Further reading [link]

Osada H, Grutz GG, Axelson H, et al. (1997). "LIM-only protein Lmo2 forms a protein complex with erythroid transcription factor GATA-1.". Leukemia 11 Suppl 3: 307–12. PMID 9209374.
Wadman IA, Osada H, Grütz GG, et al. (1997). "The LIM-only protein Lmo2 is a bridging molecule assembling an erythroid, DNA-binding complex which includes the TAL1, E47, GATA-1 and Ldb1/NLI proteins.". EMBO J. 16 (11): 3145–57. DOI:10.1093/emboj/16.11.3145. PMC 1169933. PMID 9214632. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=1169933.
Jurata LW, Gill GN (1997). "Functional analysis of the nuclear LIM domain interactor NLI.". Mol. Cell. Biol. 17 (10): 5688–98. PMC 232417. PMID 9315627. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=232417.
Visvader JE, Mao X, Fujiwara Y, et al. (1998). "The LIM-domain binding protein Ldb1 and its partner LMO2 act as negative regulators of erythroid differentiation.". Proc. Natl. Acad. Sci. U.S.A. 94 (25): 13707–12. DOI:10.1073/pnas.94.25.13707. PMC 28370. PMID 9391090. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=28370.
Jurata LW, Pfaff SL, Gill GN (1998). "The nuclear LIM domain interactor NLI mediates homo- and heterodimerization of LIM domain transcription factors.". J. Biol. Chem. 273 (6): 3152–7. DOI:10.1074/jbc.273.6.3152. PMID 9452425.
Kenny DA, Jurata LW, Saga Y, Gill GN (1998). "Identification and characterization of LMO4, an LMO gene with a novel pattern of expression during embryogenesis.". Proc. Natl. Acad. Sci. U.S.A. 95 (19): 11257–62. DOI:10.1073/pnas.95.19.11257. PMC 21629. PMID 9736723. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=21629.
Valge-Archer V, Forster A, Rabbitts TH (1999). "The LMO1 and LDB1 proteins interact in human T cell acute leukaemia with the chromosomal translocation t(11;14)(p15;q11).". Oncogene 17 (24): 3199–202. DOI:10.1038/sj.onc.1202353. PMID 9872335.
Ueki N, Seki N, Yano K, et al. (1999). "Isolation and chromosomal assignment of human genes encoding cofactor of LIM homeodomain proteins, CLIM1 and CLIM2.". J. Hum. Genet. 44 (2): 112–5. DOI:10.1007/s100380050120. PMID 10083735.
Drechsler M, Schumacher V, Friedrich S, et al. (2000). "Genomic structure, alternative transcripts and chromosome location of the human LIM domain binding protein 1 gene LDB1.". Cytogenet. Cell Genet. 87 (1–2): 119–24. DOI:10.1159/000015377. PMID 10640831.
Dreyer SD, Morello R, German MS, et al. (2000). "LMX1B transactivation and expression in nail-patella syndrome". Hum. Mol. Genet. 9 (7): 1067–74. DOI:10.1093/hmg/9.7.1067. PMID 10767331.
Sum EY, Peng B, Yu X, et al. (2002). "The LIM domain protein LMO4 interacts with the cofactor CtIP and the tumor suppressor BRCA1 and inhibits BRCA1 activity". J. Biol. Chem. 277 (10): 7849–56. DOI:10.1074/jbc.M110603200. PMID 11751867.
Ostendorff HP, Peirano RI, Peters MA, et al. (2002). "Ubiquitination-dependent cofactor exchange on LIM homeodomain transcription factors". Nature 416 (6876): 99–103. DOI:10.1038/416099a. PMID 11882901.
Deane JE, Visvader JE, Mackay JP, Matthew JM (2003). "1H, 15N and 13C assignments of FLIN4, an intramolecular LMO4:ldb1 complex". J. Biomol. NMR 23 (2): 165–6. DOI:10.1023/A:1016363414644. PMID 12153047.
Chen L, Segal D, Hukriede NA, et al. (2002). "Ssdp proteins interact with the LIM-domain-binding protein Ldb1 to regulate development". Proc. Natl. Acad. Sci. U.S.A. 99 (22): 14320–5. DOI:10.1073/pnas.212532399. PMC 137882. PMID 12381786. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=137882.
Strausberg RL, Feingold EA, Grouse LH, et al. (2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci. U.S.A. 99 (26): 16899–903. DOI:10.1073/pnas.242603899. PMC 139241. PMID 12477932. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=139241.
van Meyel DJ, Thomas JB, Agulnick AD (2003). "Ssdp proteins bind to LIM-interacting co-factors and regulate the activity of LIM-homeodomain protein complexes in vivo". Development 130 (9): 1915–25. DOI:10.1242/dev.00389. PMID 12642495.
Deane JE, Mackay JP, Kwan AH, et al. (2003). "Structural basis for the recognition of ldb1 by the N-terminal LIM domains of LMO2 and LMO4". EMBO J. 22 (9): 2224–33. DOI:10.1093/emboj/cdg196. PMC 156068. PMID 12727888. //www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=156068.
Marini M, Bongers EM, Cusano R, et al. (2004). "Confirmation of CLIM2/LMX1B interaction by yeast two-hybrid screening and analysis of its involvement in nail-patella syndrome". Int. J. Mol. Med. 12 (1): 79–82. PMID 12792813.

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