4KFZ

Crystal structure of LMO2 and anti-LMO2 VH complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Conformational flexibility of the oncogenic protein LMO2 primes the formation of the multi-protein transcription complex.

Sewell, H.Tanaka, T.Omari, K.E.Mancini, E.J.Cruz, A.Fernandez-Fuentes, N.Chambers, J.Rabbitts, T.H.

(2014) Sci Rep 4: 3643-3643

  • DOI: 10.1038/srep03643

  • PubMed Abstract: 
  • LMO2 was discovered via chromosomal translocations in T-cell leukaemia and shown normally to be essential for haematopoiesis. LMO2 is made up of two LIM only domains (thus it is a LIM-only protein) and forms a bridge in a multi-protein complex. We ha ...

    LMO2 was discovered via chromosomal translocations in T-cell leukaemia and shown normally to be essential for haematopoiesis. LMO2 is made up of two LIM only domains (thus it is a LIM-only protein) and forms a bridge in a multi-protein complex. We have studied the mechanism of formation of this complex using a single domain antibody fragment that inhibits LMO2 by sequestering it in a non-functional form. The crystal structure of LMO2 with this antibody fragment has been solved revealing a conformational difference in the positioning and angle between the two LIM domains compared with its normal binding. This contortion occurs by bending at a central helical region of LMO2. This is a unique mechanism for inhibiting an intracellular protein function and the structural contusion implies a model in which newly synthesized, intrinsically disordered LMO2 binds to a partner protein nucleating further interactions and suggests approaches for therapeutic targeting of LMO2.


    Organizational Affiliation

    1] Leeds Institute of Molecular Medicine Wellcome Trust Brenner Building St. James's University Hospital University of Leeds Leeds, LS9 7TF, UK [2] [3].,1] Wellcome Trust Centre for Human Genetics Division of Structural Biology University of Oxford Headington, Oxford OX3 7BN, UK [2].,1] Weatherall Institute of Molecular Medicine MRC Molecular Haematology Unit University of Oxford John Radcliffe Hospital Oxford OX3 9DS, UK [2] Leeds Institute of Molecular Medicine Wellcome Trust Brenner Building St. James's University Hospital University of Leeds Leeds, LS9 7TF, UK.,1] Weatherall Institute of Molecular Medicine MRC Molecular Haematology Unit University of Oxford John Radcliffe Hospital Oxford OX3 9DS, UK [2] Leeds Institute of Molecular Medicine Wellcome Trust Brenner Building St. James's University Hospital University of Leeds Leeds, LS9 7TF, UK [3] [4].,Wellcome Trust Centre for Human Genetics Division of Structural Biology University of Oxford Headington, Oxford OX3 7BN, UK.,1] Leeds Institute of Molecular Medicine Wellcome Trust Brenner Building St. James's University Hospital University of Leeds Leeds, LS9 7TF, UK [2].




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LMO-2
A, B
150Homo sapiensMutation(s): 0 
Gene Names: LMO2 (RBTN2, RBTNL1, RHOM2, TTG2)
Find proteins for P25791 (Homo sapiens)
Go to Gene View: LMO2
Go to UniProtKB:  P25791
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Anti-LMO2 VH
C, D
129Homo sapiensMutation(s): 0 
Gene Names: IGHV3-23
Find proteins for P01764 (Homo sapiens)
Go to UniProtKB:  P01764
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.239 
  • Space Group: P 6
Unit Cell:
Length (Å)Angle (°)
a = 124.260α = 90.00
b = 124.260β = 90.00
c = 81.440γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
ADSCdata collection
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-01-22
    Type: Initial release