6KI6

Crystal structure of BCL11A in complex with gamma-globin -115 HPFH region

• PDB DOI: https://doi.org/10.2210/pdb6KI6/pdb
• NAKB: 6KI6

• Classification: TRANSCRIPTION/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-07-17 Released: 2019-09-11 
• Deposition Author(s): Li, F.D., Yang, Y., Shi, Y.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.251 
• R-Value Work: 0.207 
• R-Value Observed: 0.209 

Literature

Structural insights into the recognition of gamma-globin gene promoter by BCL11A.

Yang, Y., Xu, Z., He, C., Zhang, B., Shi, Y., Li, F.

(2019) Cell Res 29: 960-963

• PubMed: 31467406 
• DOI: https://doi.org/10.1038/s41422-019-0221-0
• Primary Citation of Related Structures:  
  6KI6

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Organizational Affiliation: 

Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, 230026, Hefei, Anhui, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 41.5 kDa 
• Atom Count: 2,179 
• Modelled Residue Count: 185 
• Deposited Residue Count: 270 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
B-cell lymphoma/leukemia 11A	A, B	109	Homo sapiens	Mutation(s): 0  Gene Names: BCL11A, CTIP1, EVI9, KIAA1809, ZNF856
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H165 (Homo sapiens) Explore Q9H165  Go to UniProtKB:  Q9H165
PHAROS:  Q9H165 GTEx:  ENSG00000119866

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*AP*TP*AP*TP*TP*GP*GP*TP*CP*AP*AP*GP*G)-3')	C, F	13	Homo sapiens

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*TP*CP*CP*TP*TP*GP*AP*CP*CP*AP*AP*TP*A)-3')	D, E	13	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	G [auth A], H [auth A], I [auth A], J [auth B], K [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.251 
• R-Value Work: 0.207 
• R-Value Observed: 0.209 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.555	α = 90
b = 59.555	β = 90
c = 213.367	γ = 120

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-09-11 
Deposition Author(s): Li, F.D., Yang, Y., Shi, Y.Y.

Revision History  

• Version 1.0: 2019-09-11
  Type: Initial release
  
• Version 1.1: 2019-11-20
  Changes: Database references
• Version 1.2: 2024-03-27
  Changes: Data collection, Database references