Home LiteratureArticle Details
PMID: 12727888 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Structural basis for the recognition of ldb1 by the N-terminal LIM domains of LMO2 and LMO4.

The EMBO journal ·Vol. 22 ·No. 9 ·2003-05-01 ·Pages 2224-33

Deane JE, Mackay JP, Kwan AH, Sum EY, Visvader JE, Matthews JM

Abstract

LMO2 and LMO4 are members of a small family of nuclear transcriptional regulators that are important for both normal development and disease processes. LMO2 is essential for hemopoiesis and angiogenesis, and inappropriate overexpression of this protein leads to T-cell leukemias. LMO4 is developmentally regulated in the mammary gland and has been implicated in breast oncogenesis. Both proteins comprise two tandemly repeated LIM domains. LMO2 and LMO4 interact with the ubiquitous nuclear adaptor protein ldb1/NLI/CLIM2, which associates with the LIM domains of LMO and LIM homeodomain proteins via its LIM interaction domain (ldb1-LID). We report the solution structures of two LMO:ldb1 complexes (PDB: 1M3V and 1J2O) and show that ldb1-LID binds to the N-terminal LIM domain (LIM1) of LMO2 and LMO4 in an extended conformation, contributing a third strand to a beta-hairpin in LIM1 domains. These findings constitute the first molecular definition of LIM-mediated protein-protein interactions and suggest a mechanism by which ldb1 can bind a variety of LIM domains that share low sequence homology.

MeSH Terms
Adaptor Proteins, Signal Transducing Amino Acid Sequence Circular Dichroism DNA-Binding Proteins/metabolism Homeodomain Proteins/metabolism Inhibitor of Differentiation Protein 1 LIM Domain Proteins Metalloproteins/metabolism Models, Molecular Molecular Sequence Data Nuclear Magnetic Resonance, Biomolecular Protein Conformation Repressor Proteins Sequence Homology, Amino Acid Spectrophotometry, Ultraviolet Transcription Factors/chemistry,metabolism
Chemicals
Adaptor Proteins, Signal Transducing DNA-Binding Proteins Homeodomain Proteins Inhibitor of Differentiation Protein 1 LIM Domain Proteins LMO4 protein, human Metalloproteins Repressor Proteins Transcription Factors
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Deane Janet E
School of Molecular and Microbial Biosciences, University of Sydney, NSW 2006, Australia.
Mackay Joel P
Kwan Ann H Y
Sum Eleanor Y M
Visvader Jane E
Matthews Jacqueline M
References (42)
42 references, click to expand
  1. Structure of cysteine- and glycine-rich protein CRP2. Backbone dynamics reveal motional freedom and independent spatial orientation of the lim domains.
    J Biol Chem. 1998 Sep 4;273(36):23233-40 PMID: 9722554
  2. The LIM-domain binding protein Ldb1 and its partner LMO2 act as negative regulators of erythroid differentiation.
    Proc Natl Acad Sci U S A. 1997 Dec 9;94(25):13707-12 PMID: 9391090
  3. Crystallography & NMR system: A new software suite for macromolecular structure determination.
    Acta Crystallogr D Biol Crystallogr. 1998 Sep 1;54(Pt 5):905-21 PMID: 9757107
  4. Molecular cloning of LMO41, a new human LIM domain gene.
    Biochim Biophys Acta. 1999 Apr 14;1445(1):148-53 PMID: 10209267
  5. The solution structure of the N-terminal zinc finger of GATA-1 reveals a specific binding face for the transcriptional co-factor FOG.
    J Biomol NMR. 1999 Mar;13(3):249-62 PMID: 10212985
  6. Protein backbone angle restraints from searching a database for chemical shift and sequence homology.
    J Biomol NMR. 1999 Mar;13(3):289-302 PMID: 10212987
  7. Solution structure of the chicken cysteine-rich protein, CRP1, a double-LIM protein implicated in muscle differentiation.
    Biochemistry. 1999 May 4;38(18):5701-13 PMID: 10231520
  8. Mutational analysis and NMR spectroscopy of quail cysteine and glycine-rich protein CRP2 reveal an intrinsic segmental flexibility of LIM domains.
    J Mol Biol. 1999 Oct 1;292(4):893-908 PMID: 10525413
  9. The oncogenic LIM-only transcription factor Lmo2 regulates angiogenesis but not vasculogenesis in mice.
    Proc Natl Acad Sci U S A. 2000 Jan 4;97(1):320-4 PMID: 10618416
  10. The LIM domain: regulation by association.
    Mech Dev. 2000 Mar 1;91(1-2):5-17 PMID: 10704826
  11. Electrostatic aspects of protein-protein interactions.
    Curr Opin Struct Biol. 2000 Apr;10(2):153-9 PMID: 10753808
  12. Solution structure of the focal adhesion adaptor PINCH LIM1 domain and characterization of its interaction with the integrin-linked kinase ankyrin repeat domain.
    J Biol Chem. 2001 Feb 16;276(7):4932-9 PMID: 11078733
  13. Design, production and characterization of FLIN2 and FLIN4: the engineering of intramolecular ldb1:LMO complexes.
    Protein Eng. 2001 Jul;14(7):493-9 PMID: 11522923
  14. Application of cross-correlated NMR spin relaxation to the zinc-finger protein CRP2(LIM2): evidence for collective motions in LIM domains.
    Biochemistry. 2001 Aug 14;40(32):9596-604 PMID: 11583159
  15. The LIM domain gene LMO4 inhibits differentiation of mammary epithelial cells in vitro and is overexpressed in breast cancer.
    Proc Natl Acad Sci U S A. 2001 Dec 4;98(25):14452-7 PMID: 11734645
  16. Coupling of folding and binding for unstructured proteins.
    Curr Opin Struct Biol. 2002 Feb;12(1):54-60 PMID: 11839490
  17. The LIM-domain protein Lmo2 is a key regulator of tumour angiogenesis: a new anti-angiogenesis drug target.
    Oncogene. 2002 Feb 21;21(9):1309-15 PMID: 11857074
  18. The LIM domain protein LMO4 interacts with the cofactor CtIP and the tumor suppressor BRCA1 and inhibits BRCA1 activity.
    J Biol Chem. 2002 Mar 8;277(10):7849-56 PMID: 11751867
  19. 1H, 15N and 13C assignments of FLIN4, an intramolecular LMO4:ldb1 complex.
    J Biomol NMR. 2002 Jun;23(2):165-6 PMID: 12153047
  20. Structure of the N-WASP EVH1 domain-WIP complex: insight into the molecular basis of Wiskott-Aldrich Syndrome.
    Cell. 2002 Nov 15;111(4):565-76 PMID: 12437929
  21. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features.
    Biopolymers. 1983 Dec;22(12):2577-637 PMID: 6667333
  22. The nuclear LIM domain interactor NLI mediates homo- and heterodimerization of LIM domain transcription factors.
    J Biol Chem. 1998 Feb 6;273(6):3152-7 PMID: 9452425
  23. Interactions between LIM domains and the LIM domain-binding protein Ldb1.
    J Biol Chem. 1998 Feb 20;273(8):4712-7 PMID: 9468533
  24. The T cell leukemia LIM protein Lmo2 is necessary for adult mouse hematopoiesis.
    Proc Natl Acad Sci U S A. 1998 Mar 31;95(7):3890-5 PMID: 9520463
  25. Measurement of J and dipolar couplings from simplified two-dimensional NMR spectra.
    J Magn Reson. 1998 Apr;131(2):373-8 PMID: 9571116
  26. Structure and intramodular dynamics of the amino-terminal LIM domain from quail cysteine- and glycine-rich protein CRP2.
    Biochemistry. 1998 May 19;37(20):7127-34 PMID: 9585524
  27. LIM domains: multiple roles as adapters and functional modifiers in protein interactions.
    Trends Genet. 1998 Apr;14(4):156-62 PMID: 9594664
  28. The antigenic index: a novel algorithm for predicting antigenic determinants.
    Comput Appl Biosci. 1988 Mar;4(1):181-6 PMID: 2454713
  29. Folding of immunogenic peptide fragments of proteins in water solution. II. The nascent helix.
    J Mol Biol. 1988 May 5;201(1):201-17 PMID: 3418697
  30. NMR structure of a specific DNA complex of Zn-containing DNA binding domain of GATA-1.
    Science. 1993 Jul 23;261(5120):438-46 PMID: 8332909
  31. Backbone dynamics of a free and phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation.
    Biochemistry. 1994 May 17;33(19):5984-6003 PMID: 7514039
  32. Measurement of homo- and heteronuclear J couplings from quantitative J correlation.
    Methods Enzymol. 1994;239:79-105 PMID: 7830604
  33. Structure of the cysteine-rich intestinal protein, CRIP.
    J Mol Biol. 1996 Mar 22;257(1):153-74 PMID: 8632452
  34. MOLMOL: a program for display and analysis of macromolecular structures.
    J Mol Graph. 1996 Feb;14(1):51-5, 29-32 PMID: 8744573
  35. Nuclear LIM interactor, a rhombotin and LIM homeodomain interacting protein, is expressed early in neuronal development.
    Proc Natl Acad Sci U S A. 1996 Oct 15;93(21):11693-8 PMID: 8876198
  36. Interactions of the LIM-domain-binding factor Ldb1 with LIM homeodomain proteins.
    Nature. 1996 Nov 21;384(6606):270-2 PMID: 8918878
  37. AQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR.
    J Biomol NMR. 1996 Dec;8(4):477-86 PMID: 9008363
  38. A family of LIM domain-associated cofactors confer transcriptional synergism between LIM and Otx homeodomain proteins.
    Genes Dev. 1997 Jun 1;11(11):1370-80 PMID: 9192866
  39. Automated NOESY interpretation with ambiguous distance restraints: the refined NMR solution structure of the pleckstrin homology domain from beta-spectrin.
    J Mol Biol. 1997 Jun 13;269(3):408-22 PMID: 9199409
  40. Functional analysis of the nuclear LIM domain interactor NLI.
    Mol Cell Biol. 1997 Oct;17(10):5688-98 PMID: 9315627
  41. Torsion angle dynamics for NMR structure calculation with the new program DYANA.
    J Mol Biol. 1997 Oct 17;273(1):283-98 PMID: 9367762
  42. LMO T-cell translocation oncogenes typify genes activated by chromosomal translocations that alter transcription and developmental processes.
    Genes Dev. 1998 Sep 1;12(17):2651-7 PMID: 9732263
Article Info
Journal
The EMBO journal
Abbr.
EMBO J
ISSN
0261-4189
Published
2003-05-01
Pages
2224-33
Language
English
Region
England
NLM ID
8208664
PMCID
PMC156068
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com