9B4P | pdb_00009b4p

Tetramer Formation of the BCL11A ZF0 Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free: 
    0.294 (Depositor), 0.294 (DCC) 
  • R-Value Work: 
    0.278 (Depositor), 0.281 (DCC) 
  • R-Value Observed: 
    0.279 (Depositor) 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A tetramer of BCL11A is required for stable protein production and fetal hemoglobin silencing.

Zheng, G.Yin, M.Mehta, S.Chu, I.T.Wang, S.AlShaye, A.Drainville, K.Buyanbat, A.Bienfait, F.Tenglin, K.Zhu, Q.Orkin, S.H.

(2024) Science 386: 1010-1018

  • DOI: https://doi.org/10.1126/science.adp3025
  • Primary Citation of Related Structures:  
    9B4P

  • PubMed Abstract: 

    Down-regulation of BCL11A protein reverses the fetal (HbF, α 2 γ 2 ) to adult (HbA, α 2 β 2 ) hemoglobin switch and is exploited in gene-based therapy for hemoglobin disorders. Because of reliance on ex vivo cell manipulation and marrow transplant, such therapies cannot lessen disease burden. To develop new small-molecule approaches, we investigated the state of BCL11A protein in erythroid cells. We report that tetramer formation mediated by a single zinc finger (ZnF0) is required for production of steady-state protein. Beyond its role in protein stability, the tetramer state is necessary for γ-globin gene repression, because an engineered monomer fails to engage a critical co-repressor complex. These aspects of BCL11A protein production identify tetramer formation as a vulnerability for HbF silencing and provide opportunities for drug discovery.


  • Organizational Affiliation
    • Dana-Farber/Boston Children's Hospital Cancer and Blood Disorder Center, Department of Pediatrics, Harvard Medical School, Boston, MA, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
B-cell lymphoma/leukemia 11A28Homo sapiensMutation(s): 0 
Gene Names: BCL11ACTIP1EVI9KIAA1809ZNF856
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H165 (Homo sapiens)
Explore Q9H165 
Go to UniProtKB:  Q9H165
PHAROS:  Q9H165
GTEx:  ENSG00000119866 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H165
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
K [auth B]
L [auth C]
M [auth A]
N [auth D]
O [auth E]
K [auth B],
L [auth C],
M [auth A],
N [auth D],
O [auth E],
P [auth F],
Q [auth G],
R [auth H],
S [auth I],
T [auth J]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.56 Å
  • R-Value Free:  0.294 (Depositor), 0.294 (DCC) 
  • R-Value Work:  0.278 (Depositor), 0.281 (DCC) 
  • R-Value Observed: 0.279 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.404α = 90
b = 58.311β = 134.122
c = 70.087γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-18
    Type: Initial release