LDB1

LIM domain-binding protein 1 is a protein that in humans is encoded by the LDB1 gene.[5][6][7]

LDB1
Available structures PDB Ortholog search: PDBe RCSB List of PDB id codes 2XJY, 2XJZ, 2YPA
Identifiers
Aliases	LDB1, CLIM2, NLI, CLIM-2, LDB-1, LIM domain binding 1
External IDs	OMIM: 603451 MGI: 894762 HomoloGene: 2891 GeneCards: LDB1
Gene location (Human) Chr. Chromosome 10 (human)[1] Band 10q24.32 Start 102,106,489 bp[1] End 102,120,368 bp[1]
Gene location (Mouse) Chr. Chromosome 19 (mouse)[2] Band 19 C3|19 38.75 cM Start 46,031,570 bp[2] End 46,045,214 bp[2]
RNA expression pattern More reference expression data
Gene ontology Molecular function • DNA binding • protein homodimerization activity • GO:0001106 transcription corepressor activity • LIM domain binding • chromatin binding • RNA polymerase II activating transcription factor binding • protein self-association • GO:0001948 protein binding • GO:0001158 core promoter proximal region sequence-specific DNA binding • enzyme binding • GO:0001104 transcription coregulator activity Cellular component • transcription regulator complex • nuclear chromatin • cell nucleus • cell leading edge • nucleoplasm • beta-catenin-TCF complex • macromolecular complex Biological process • hair follicle development • transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery • epithelial structure maintenance • regulation of transcription, DNA-templated • positive regulation of hemoglobin biosynthetic process • somatic stem cell population maintenance • regulation of transcription from RNA polymerase II promoter • gastrulation with mouth forming second • cerebellar Purkinje cell differentiation • regulation of DNA-templated transcription, elongation • head development • histone H3-K4 acetylation • Wnt signaling pathway • transcription from RNA polymerase II promoter • transcription, DNA-templated • cerebellum development • negative regulation of erythrocyte differentiation • multicellular organism development • neuron differentiation • anterior/posterior axis specification • cellular component assembly • negative regulation of transcription, DNA-templated • positive regulation of transcription from RNA polymerase II promoter • positive regulation of cell adhesion • regulation of focal adhesion assembly • regulation of cell migration • regulation of kinase activity • regulation of hematopoietic stem cell differentiation • negative regulation of transcription from RNA polymerase II promoter Sources:Amigo / QuickGO
Orthologs
Species	Human	Mouse
Entrez	8861	16825
Ensembl	ENSG00000198728	ENSMUSG00000025223
UniProt	Q86U70	P70662
RefSeq (mRNA)	NM_001113407 NM_003893 NM_001321612	NM_001113408 NM_010697 NM_001360336
RefSeq (protein)	NP_001106878 NP_001308541 NP_003884	NP_001106879 NP_034827 NP_001347265
Location (UCSC)	Chr 10: 102.11 – 102.12 Mb	Chr 19: 46.03 – 46.05 Mb
PubMed search	[3]	[4]
Wikidata
View/Edit Human View/Edit Mouse

Interactions

LDB1 has been shown to interact with LMO4,[8][9] TCF3,[10] TAL1[10] and CBFA2T3.[10]

References

1. GRCh38: Ensembl release 89: ENSG00000198728 - Ensembl, May 2017
2. GRCm38: Ensembl release 89: ENSMUSG00000025223 - Ensembl, May 2017
3. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
4. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
5. 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.
6. 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. S2CID 28813194.
7. "Entrez Gene: LDB1 LIM domain binding 1".
8. 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. 107 (1): 155–8. doi:10.1002/ijc.11343. ISSN 0020-7136. PMID 12925972. S2CID 20908722.
9. 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. 22 (9): 2224–33. doi:10.1093/emboj/cdg196. ISSN 0261-4189. PMC 156068. PMID 12727888.
10. 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. 25 (2): 357–66. doi:10.1038/sj.emboj.7600934. ISSN 0261-4189. PMC 1383517. PMID 16407974.

Further reading

• 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.
• Jurata LW, Gill GN (1997). "Functional analysis of the nuclear LIM domain interactor NLI". Mol. Cell. Biol. 17 (10): 5688–98. doi:10.1128/MCB.17.10.5688. PMC 232417. PMID 9315627.
• 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. Bibcode:1997PNAS...9413707V. doi:10.1073/pnas.94.25.13707. PMC 28370. PMID 9391090.
• 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. Bibcode:1998PNAS...9511257K. doi:10.1073/pnas.95.19.11257. PMC 21629. PMID 9736723.
• 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. S2CID 23735189.
• 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. Bibcode:2002Natur.416...99O. doi:10.1038/416099a. PMID 11882901. S2CID 4426785.
• 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. S2CID 30891765.
• 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. Bibcode:2002PNAS...9914320C. doi:10.1073/pnas.212532399. PMC 137882. PMID 12381786.
• 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. Bibcode:2002PNAS...9916899M. doi:10.1073/pnas.242603899. PMC 139241. PMID 12477932.
• 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.
• 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. doi:10.3892/ijmm.12.1.79. PMID 12792813.