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 connect centromeric chromatin to microtubules of the mitotic spindle 3,4 ...

    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 MIF2 C22Saccharomyces 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 MCM16 H133Saccharomyces 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 CTF3 I408Saccharomyces 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 MCM22 K122Saccharomyces 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 IML3 L241Saccharomyces 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 CHL4 N447Saccharomyces 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 MCM21 O212Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: MCM21CTF5YDR318W
Find proteins for Q06675 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit CTF19 P270Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CTF19MCM18YPL018WLPB13W
Find proteins for Q02732 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit OKP1 Q231Saccharomyces 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 AME1 U190Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: AME1ARP100YBR211CYBR1458
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit NKP1 Y237Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: NKP1YDR383C
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
Inner kinetochore subunit NKP2 Z151Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: NKP2YLR315W
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3-like centromeric protein CSE4 a90Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSE4CSL2YKL049CYKL262
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H4 bf79Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HHF1YBR009CYBR0122HHF2YNL030WN2752
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2B.2 d93Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTB2H2B2YBL002WYBL0104
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3-like centromeric protein CSE4 e115Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: CSE4CSL2YKL049CYKL262
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2A.1 g105Saccharomyces 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.1 h94Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTB1H2B1SPT12YDR224CYD9934.09C
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2A.1 i102Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HTA1H2A1SPT11YDR225WYD9934.10
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Entity ID: 2
MoleculeChainsLengthOrganismImage
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  (Full details and data files)

  • 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