6SRI

Structure of the Fanconi anaemia core complex


Experimental Data Snapshot

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

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of the Fanconi anaemia monoubiquitin ligase complex.

Shakeel, S.Rajendra, E.Alcon, P.O'Reilly, F.Chorev, D.S.Maslen, S.Degliesposti, G.Russo, C.J.He, S.Hill, C.H.Skehel, J.M.Scheres, S.H.W.Patel, K.J.Rappsilber, J.Robinson, C.V.Passmore, L.A.

(2019) Nature 575: 234-237

  • DOI: 10.1038/s41586-019-1703-4
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The Fanconi anaemia (FA) pathway repairs DNA damage caused by endogenous and chemotherapy-induced DNA crosslinks, and responds to replication stress 1,2 . Genetic inactivation of this pathway by mutation of genes encoding FA complementatio ...

    The Fanconi anaemia (FA) pathway repairs DNA damage caused by endogenous and chemotherapy-induced DNA crosslinks, and responds to replication stress 1,2 . Genetic inactivation of this pathway by mutation of genes encoding FA complementation group (FANC) proteins impairs development, prevents blood production and promotes cancer 1,3 . The key molecular step in the FA pathway is the monoubiquitination of a pseudosymmetric heterodimer of FANCD2-FANCI 4,5 by the FA core complex-a megadalton multiprotein E3 ubiquitin ligase 6,7 . Monoubiquitinated FANCD2 then recruits additional protein factors to remove the DNA crosslink or to stabilize the stalled replication fork. A molecular structure of the FA core complex would explain how it acts to maintain genome stability. Here we reconstituted an active, recombinant FA core complex, and used cryo-electron microscopy and mass spectrometry to determine its structure. The FA core complex comprises two central dimers of the FANCB and FA-associated protein of 100 kDa (FAAP100) subunits, flanked by two copies of the RING finger subunit, FANCL. These two heterotrimers act as a scaffold to assemble the remaining five subunits, resulting in an extended asymmetric structure. Destabilization of the scaffold would disrupt the entire complex, resulting in a non-functional FA pathway. Thus, the structure provides a mechanistic basis for the low numbers of patients with mutations in FANCB, FANCL and FAAP100. Despite a lack of sequence homology, FANCB and FAAP100 adopt similar structures. The two FANCL subunits are in different conformations at opposite ends of the complex, suggesting that each FANCL has a distinct role. This structural and functional asymmetry of dimeric RING finger domains may be a general feature of E3 ligases. The cryo-electron microscopy structure of the FA core complex provides a foundation for a detailed understanding of its E3 ubiquitin ligase activity and DNA interstrand crosslink repair.


    Organizational Affiliation

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



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100: chain A,a; base region, proposed FANCC-FANC-E-FANCF: chain 3)
3, A, a
76Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
B, b
25Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
C, c
30Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
D, d
23Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100: chain F,f; base region, proposed FANCC-FANC-E-FANCF: chain Z)
F, Z, f
15Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
G, g
26Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
H, J, h, j
17Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
L, l
18Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (proposed FANCB)
M, m
120Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (proposed FAAP100)
N, n
43Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (proposed FANCB)
O, o
279Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (proposed FAAP100)
P, p
276Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
U
227Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
V
27Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
Y
84Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
1
109Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
2
62Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Fanconi anaemia protein FANCL
Q, q
373Gallus gallusMutation(s): 0 
Gene Names: FANCL
Find proteins for Q3MUH5 (Gallus gallus)
Go to UniProtKB:  Q3MUH5

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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
base region, proposed FANCF
T
201Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (top region, proposed FANCG)
S
145Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
K, k
21Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
W
20Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
X
13Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (base region, proposed FANCC-FANC-E-FANCF)
4
71Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (top region, proposed FANCG)
R
285Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
E, e
9Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Unassigned secondary structure elements (central region, proposed FANCB-FAAP100)
I, i
37Gallus gallusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

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

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMC_U105192715

Revision History 

  • Version 1.0: 2019-11-06
    Type: Initial release
  • Version 1.1: 2019-11-13
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-20
    Changes: Database references