9IGJ | pdb_00009igj

structure of two human ELF2 transcription factors in complex with a nucleosome

• PDB DOI: https://doi.org/10.2210/pdb9IGJ/pdb
• EM Map EMD-52852: EMDB EMDataResource

• Classification: DNA BINDING PROTEIN
• Organism(s): Xenopus laevis, Homo sapiens, synthetic construct
• Expression System: Escherichia coli BL21(DE3), Escherichia coli
• Mutation(s): No 


• Deposited: 2025-02-19 Released: 2026-03-04 
• Deposition Author(s): Xiao, T., Crowe-McAuliffe, C., Dienemann, C., Taipale, J.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC), Cancer Research UK, Medical Research Council (MRC, United Kingdom), Max Planck Society

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental, in silico

Literature

The pioneer transcription factor ELF2 remodels the nucleosome near transcription start sites

Xiao, T., Crowe-McAuliffe, C., Ochmann, M., Du, Y., Hou, T., Chen, Y., Zhu, F., Seyednasrollah, F., Osmala, M., Vanharanta, S., Morgunova, E., Cramer, P., Rogerson, C., Dienemann, C., Taipale, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 10-mer - A2B2C2D2E2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 10-mer - A6B2C2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 8-mer - A2B2C2D2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 8-mer - A2B2C2D2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 233.61 kDa 
• Atom Count: 12,529 
• Modeled Residue Count: 1,170 
• Deposited Residue Count: 1,568 
• Unique protein chains: 5
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
histone H3	A, E	136	Xenopus laevis	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H4	B, F	103	Xenopus laevis	Mutation(s): 0
UniProt
Find proteins for P62799 (Xenopus laevis) Explore P62799  Go to UniProtKB:  P62799

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H2A type 1	C, G	130	Xenopus laevis	Mutation(s): 0
UniProt
Find proteins for P06897 (Xenopus laevis) Explore P06897  Go to UniProtKB:  P06897

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H2B 1.1	D, H	123	Xenopus laevis	Mutation(s): 0
UniProt
Find proteins for P02281 (Xenopus laevis) Explore P02281  Go to UniProtKB:  P02281

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
ETS-related transcription factor Elf-2	I [auth L], J [auth K]	145	Homo sapiens	Mutation(s): 0  Gene Names: ELF2, NERF
UniProt & NIH Common Fund Data Resources
Find proteins for Q15723 (Homo sapiens) Explore Q15723  Go to UniProtKB:  Q15723
PHAROS:  Q15723 GTEx:  ENSG00000109381

Entity ID: 6
Molecule	Chains	Length	Organism	Image
DNA (147-MER)	K [auth J]	147	synthetic construct

Entity ID: 7
Molecule	Chains	Length	Organism	Image
DNA (147-MER)	L [auth I]	147	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	Coot
RECONSTRUCTION	RELION

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-03-04 
Deposition Author(s): Xiao, T., Crowe-McAuliffe, C., Dienemann, C., Taipale, J.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	G107673
Cancer Research UK	United Kingdom	RG99643
Medical Research Council (MRC, United Kingdom)	United Kingdom	G105296
Max Planck Society	Germany	--

Revision History  

• Version 1.0: 2026-03-04
  Type: Initial release