7KZT

Structure of the human fanconi anaemia Core-UBE2T-ID-DNA complex in intermediate state

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.1 of the entry. See complete history. 


Literature

Structure of the FA core ubiquitin ligase closing the ID clamp on DNA.

Wang, S., Wang, R., Peralta, C., Yaseen, A., Pavletich, N.P.

(2021) Nat Struct Mol Biol 28: 300-309

  • DOI: https://doi.org/10.1038/s41594-021-00568-8
  • Primary Citation of Related Structures:  
    7KZP, 7KZQ, 7KZR, 7KZS, 7KZT, 7KZV

  • PubMed Abstract: 

    • The Fanconi anemia (FA) pathway is essential for the repair of DNA interstrand crosslinks. Central to the pathway is the FA core complex, a ubiquitin ligase of nine subunits that monoubiquitinates the FANCI-FANCD2 (ID) DNA clamp. The 3.1 Å structure of the 1 ...

    The Fanconi anemia (FA) pathway is essential for the repair of DNA interstrand crosslinks. Central to the pathway is the FA core complex, a ubiquitin ligase of nine subunits that monoubiquitinates the FANCI-FANCD2 (ID) DNA clamp. The 3.1 Å structure of the 1.1-MDa human FA core complex, described here, reveals an asymmetric assembly with two copies of all but the FANCC, FANCE and FANCF subunits. The asymmetry is crucial, as it prevents the binding of a second FANCC-FANCE-FANCF subcomplex that inhibits the recruitment of the UBE2T ubiquitin conjugating enzyme, and instead creates an ID binding site. A single active site then ubiquitinates FANCD2 and FANCI sequentially. We also present the 4.2-Å structures of the human core-UBE2T-ID-DNA complex in three conformations captured during monoubiquitination. They reveal the core-UBE2T complex remodeling the ID-DNA complex, closing the clamp on the DNA before ubiquitination. Monoubiquitination then prevents clamp opening after release from the core.

    Organizational Affiliation: 

    Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA. pavletin@mskcc.org.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group A proteinA,
L [auth S]		1,477Homo sapiensMutation(s): 0 
Gene Names: FANCA, FAA, FACA, FANCH
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UniProt GroupO15360
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group B proteinB,
I [auth O]		884Homo sapiensMutation(s): 0 
Gene Names: FANCB
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group C protein583Homo sapiensMutation(s): 0 
Gene Names: FANCC, FAC, FACC
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group E proteinD [auth E]555Homo sapiensMutation(s): 0 
Gene Names: FANCE, FACE
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group F proteinE [auth F]399Homo sapiensMutation(s): 0 
Gene Names: FANCF
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group G proteinF [auth G],
G [auth H]		641Homo sapiensMutation(s): 0 
Gene Names: FANCG, XRCC9
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase FANCLH [auth L],
N [auth M]		394Homo sapiensMutation(s): 0 
Gene Names: FANCL, PHF9
EC: 2.3.2.27
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia core complex-associated protein 100J [auth P],
K [auth Q]		906Homo sapiensMutation(s): 0 
Gene Names: FAAP100, C17orf70
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Entity ID: 9
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Fanconi anemia core complex-associated protein 20M [auth W]39Homo sapiensMutation(s): 0 
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquitin-conjugating enzyme E2 TO [auth X]197Homo sapiensMutation(s): 0 
Gene Names: UBE2T, HSPC150, PIG50
EC: 2.3.2.23
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia, complementation group IP [auth U]1,328Homo sapiensMutation(s): 0 
Gene Names: FANCI
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Fanconi anemia group D2 proteinQ [auth V]1,451Homo sapiensMutation(s): 0 
Gene Names: FANCD2, FACD
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Entity ID: 13
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DNA (22-MER)R [auth Y]58synthetic construct
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Entity ID: 14
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DNA (22-MER)S [auth Z]58synthetic construct
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-10
    Type: Initial release
  • Version 1.1: 2021-03-24
    Changes: Database references