6QLD

Structure of inner kinetochore CCAN-Cenp-A complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

Structure of the inner kinetochore CCAN complex assembled onto a centromeric nucleosome.

Yan, K.Yang, J.Zhang, Z.McLaughlin, S.H.Chang, L.Fasci, D.Ehrenhofer-Murray, A.E.Heck, A.J.R.Barford, D.

(2019) Nature 574: 278-282

  • DOI: 10.1038/s41586-019-1609-1
  • Primary Citation of Related Structures:  
    6QLD, 6QLF, 6QLE

  • PubMed Abstract: 
  • In eukaryotes, accurate chromosome segregation in mitosis and meiosis maintains genome stability and prevents aneuploidy. Kinetochores are large protein complexes that, by assembling onto specialized Cenp-A nucleosomes 1,2 , function to co ...

    In eukaryotes, accurate chromosome segregation in mitosis and meiosis maintains genome stability and prevents aneuploidy. Kinetochores are large protein complexes that, by assembling onto specialized Cenp-A nucleosomes 1,2 , function to connect centromeric chromatin to microtubules of the mitotic spindle 3,4 . Whereas the centromeres of vertebrate chromosomes comprise millions of DNA base pairs and attach to multiple microtubules, the simple point centromeres of budding yeast are connected to individual microtubules 5,6 . All 16 budding yeast chromosomes assemble complete kinetochores using a single Cenp-A nucleosome (Cenp-A Nuc ), each of which is perfectly centred on its cognate centromere 7-9 . The inner and outer kinetochore modules are responsible for interacting with centromeric chromatin and microtubules, respectively. Here we describe the cryo-electron microscopy structure of the Saccharomyces cerevisiae inner kinetochore module, the constitutive centromere associated network (CCAN) complex, assembled onto a Cenp-A nucleosome (CCAN-Cenp-A Nuc ). The structure explains the interdependency of the constituent subcomplexes of CCAN and shows how the Y-shaped opening of CCAN accommodates Cenp-A Nuc to enable specific CCAN subunits to contact the nucleosomal DNA and histone subunits. Interactions with the unwrapped DNA duplex at the two termini of Cenp-A Nuc are mediated predominantly by a DNA-binding groove in the Cenp-L-Cenp-N subcomplex. Disruption of these interactions impairs assembly of CCAN onto Cenp-A Nuc . Our data indicate a mechanism of Cenp-A nucleosome recognition by CCAN and how CCAN acts as a platform for assembly of the outer kinetochore to link centromeres to the mitotic spindle for chromosome segregation.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge, UK. dbarford@mrc-lmb.cam.ac.uk.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit MIF2C22Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MIF2YKL089W
Find proteins for P35201 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit MCM16H133Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM16YPR046W
Find proteins for Q12262 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit CTF3I408Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CTF3CHL3YLR381W
Find proteins for Q12748 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit MCM22K122Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM22YJR135CJ2122
Find proteins for P47167 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit IML3L241Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: IML3MCM19YBR107CYBR0836
Find proteins for P38265 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit CHL4N447Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CHL4CTF17MCM17YDR254WYD9320A.04
Find proteins for P38907 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit MCM21O212Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM21CTF5YDR318W
Find proteins for Q06675 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 10
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Inner kinetochore subunit CTF19P270Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CTF19MCM18YPL018WLPB13W
Find proteins for Q02732 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 11
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Inner kinetochore subunit OKP1Q231Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: OKP1YGR179C
Find proteins for P53298 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 12
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Inner kinetochore subunit AME1U190Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: AME1ARP100YBR211CYBR1458
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit NKP1Y237Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: NKP1YDR383C
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Entity ID: 14
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Inner kinetochore subunit NKP2Z151Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: NKP2YLR315W
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3-like centromeric protein CSE4a90Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSE4CSL2YKL049CYKL262
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H4bf79Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HHF1YBR009CYBR0122HHF2YNL030WN2752
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2B.2d93Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTB2H2B2YBL002WYBL0104
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3-like centromeric protein CSE4e115Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSE4CSL2YKL049CYKL262
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Entity ID: 19
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Histone H2A.1g105Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTA1H2A1SPT11YDR225WYD9934.10
Find proteins for P04911 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 20
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Histone H2B.1h94Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTB1H2B1SPT12YDR224CYD9934.09C
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2A.1i102Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTA1H2A1SPT11YDR225WYD9934.10
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Entity ID: 2
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DNA (125-MER)G124Escherichia coli
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Entity ID: 5
MoleculeChainsLengthOrganismImage
DNA (125-MER)J124Escherichia coli
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMC_UP_1201/6
Cancer Research UKUnited KingdomC576/A14109
European CommissionINFRAIA project Epic-XS (Project 823839)

Revision History 

  • Version 1.0: 2019-10-02
    Type: Initial release
  • Version 1.1: 2019-10-16
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-27
    Changes: Database references