7Y5V

Cryo-EM structure of the dimeric human CAF1LC-H3-H4 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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Literature

Structural insights into histone binding and nucleosome assembly by chromatin assembly factor-1.

Liu, C.P.Yu, Z.Xiong, J.Hu, J.Song, A.Ding, D.Yu, C.Yang, N.Wang, M.Yu, J.Hou, P.Zeng, K.Li, Z.Zhang, Z.Zhang, X.Li, W.Zhang, Z.Zhu, B.Li, G.Xu, R.M.

(2023) Science 381: eadd8673-eadd8673

  • DOI: https://doi.org/10.1126/science.add8673
  • Primary Citation of Related Structures:  
    7Y5K, 7Y5L, 7Y5O, 7Y5U, 7Y5V, 7Y5W, 7Y60, 7Y61, 8IQF, 8IQG, 8J6S, 8J6T

  • PubMed Abstract: 

    Chromatin inheritance entails de novo nucleosome assembly after DNA replication by chromatin assembly factor-1 (CAF-1). Yet direct knowledge about CAF-1's histone binding mode and nucleosome assembly process is lacking. In this work, we report the crystal structure of human CAF-1 in the absence of histones and the cryo-electron microscopy structure of CAF-1 in complex with histones H3 and H4. One histone H3-H4 heterodimer is bound by one CAF-1 complex mainly through the p60 subunit and the acidic domain of the p150 subunit. We also observed a dimeric CAF-1-H3-H4 supercomplex in which two H3-H4 heterodimers are poised for tetramer assembly and discovered that CAF-1 facilitates right-handed DNA wrapping of H3-H4 tetramers. These findings signify the involvement of DNA in H3-H4 tetramer formation and suggest a right-handed nucleosome precursor in chromatin replication.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules and Key Laboratory of Epigenetic Regulation and Intervention, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chromatin assembly factor 1 subunit A
A, F
412Homo sapiensMutation(s): 0 
Gene Names: CHAF1A
UniProt & NIH Common Fund Data Resources
Find proteins for Q13111 (Homo sapiens)
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Go to UniProtKB:  Q13111
PHAROS:  Q13111
GTEx:  ENSG00000167670 
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UniProt GroupQ13111
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H3.1B [auth D],
G [auth I]
136Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P68431 (Homo sapiens)
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UniProt GroupP68431
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H4C [auth E],
H [auth J]
103Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62805 (Homo sapiens)
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UniProt GroupP62805
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Histone-binding protein RBBP4D [auth C],
I [auth H]
425Homo sapiensMutation(s): 0 
Gene Names: RBBP4
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Find proteins for Q09028 (Homo sapiens)
Explore Q09028 
Go to UniProtKB:  Q09028
GTEx:  ENSG00000162521 
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UniProt GroupQ09028
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Chromatin assembly factor 1 subunit BE [auth B],
J [auth G]
419Homo sapiensMutation(s): 0 
Gene Names: CHAF1B
UniProt & NIH Common Fund Data Resources
Find proteins for Q13112 (Homo sapiens)
Explore Q13112 
Go to UniProtKB:  Q13112
PHAROS:  Q13112
GTEx:  ENSG00000159259 
Entity Groups  
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UniProt GroupQ13112
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31991162
National Natural Science Foundation of China (NSFC)China91853204
National Natural Science Foundation of China (NSFC)China92153302
National Natural Science Foundation of China (NSFC)China31300614
Ministry of Science and Technology (MoST, China)China2019YFA0508900
Ministry of Science and Technology (MoST, China)China2018YFE0203300
Ministry of Science and Technology (MoST, China)China2017YFA0506600
Chinese Academy of SciencesChinaXDB37010100
Chinese Academy of SciencesChina2018125
Chinese Academy of SciencesChina2017131

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-16
    Type: Initial release
  • Version 1.1: 2023-09-06
    Changes: Database references, Structure summary