5E5A

Crystal structure of the chromatin-tethering domain of Human cytomegalovirus IE1 protein bound to the nucleosome core particle


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.198 

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This is version 1.2 of the entry. See complete history


Literature

Human cytomegalovirus IE1 protein alters the higher-order chromatin structure by targeting the acidic patch of the nucleosome

Fang, Q.Chen, P.Wang, M.Fang, J.Yang, N.Li, G.Xu, R.M.

(2016) Elife 5

  • DOI: 10.7554/eLife.11911
  • Primary Citation of Related Structures:  
    5E5A

  • PubMed Abstract: 
  • Human cytomegalovirus (hCMV) immediate early 1 (IE1) protein associates with condensed chromatin of the host cell during mitosis. We have determined the structure of the chromatin-tethering domain (CTD) of IE1 bound to the nucleosome core particle, and discovered that IE1-CTD specifically interacts with the H2A-H2B acidic patch and impairs the compaction of higher-order chromatin structure ...

    Human cytomegalovirus (hCMV) immediate early 1 (IE1) protein associates with condensed chromatin of the host cell during mitosis. We have determined the structure of the chromatin-tethering domain (CTD) of IE1 bound to the nucleosome core particle, and discovered that IE1-CTD specifically interacts with the H2A-H2B acidic patch and impairs the compaction of higher-order chromatin structure. Our results suggest that IE1 loosens up the folding of host chromatin during hCMV infections.


    Organizational Affiliation

    College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3.2 AE136Xenopus laevisMutation(s): 0 
Find proteins for P84233 (Xenopus laevis)
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H4 BF103Xenopus laevisMutation(s): 0 
Find proteins for P62799 (Xenopus laevis)
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2A CG130Xenopus laevisMutation(s): 0 
Gene Names: hist1h2ajLOC494591
Find proteins for P06897 (Xenopus laevis)
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Go to UniProtKB:  P06897
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2B 1.1 DH123Xenopus laevisMutation(s): 0 
Find proteins for P02281 (Xenopus laevis)
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Go to UniProtKB:  P02281
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
C-terminal domain of Regulatory protein IE1 K16Human herpesvirus 5 strain TowneMutation(s): 0 
Gene Names: UL123
Find proteins for P03169 (Human cytomegalovirus (strain Towne))
Explore P03169 
Go to UniProtKB:  P03169
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  • Reference Sequence
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Entity ID: 1
MoleculeChainsLengthOrganismImage
DNA (146-MER)I, J146Homo sapiens
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.81 Å
  • R-Value Free: 0.242 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.198 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 106.7α = 90
b = 109.474β = 90
c = 181.976γ = 90
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
PHASERphasing
Cootmodel building

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry Ministry of Science and Technologyof Science and TechnologyChina2015CB856200
National Natural Science Foundation of ChinaChina31430018
National Natural Science Foundation of ChinaChina31521002
National Natural Science Foundation of ChinaChina91219202
National Natural Science Foundation of ChinaChina31471218
National Natural Science Foundation of ChinaChina31210103914
Strategic Priority Research Program of Chinese Academy of SciencesChinaXDB08010100

Revision History  (Full details and data files)

  • Version 1.0: 2016-02-03
    Type: Initial release
  • Version 1.1: 2017-09-27
    Changes: Data collection, Derived calculations
  • Version 1.2: 2017-10-18
    Changes: Author supporting evidence