2IQC | pdb_00002iqc

Crystal structure of Human FancF Protein that Functions in the Assembly of a DNA Damage Signaling Complex

• PDB DOI: https://doi.org/10.2210/pdb2IQC/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-10-13 Released: 2006-11-07 
• Deposition Author(s): Kowal, P., Gurtan, A.M., Stuckert, P., Lehmann, C., D'Andrea, A., Ellenberger, T.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.255 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Literature

Structural determinants of human FANCF protein that function in the assembly of a DNA damage signaling complex.

Kowal, P., Gurtan, A.M., Stuckert, P., D'Andrea, A.D., Ellenberger, T.

(2007) J Biological Chem 282: 2047-2055

• PubMed: 17082180 
• DOI: https://doi.org/10.1074/jbc.M608356200
• Primary Citation of Related Structures:  
  2IQC


• PubMed Abstract: 
  

  Fanconi anemia (FA) is a rare autosomal recessive and X-linked chromosomal instability disorder. At least eight FA proteins (FANCA, B, C, E, F, G, L, and M) form a nuclear core complex required for monoubiquitination of a downstream protein, FANCD2. The human FANCF protein reportedly functions as a molecular adaptor within the FA nuclear complex, bridging between the subcomplexes A:G and C:E. Our x-ray crystallographic studies of the C-terminal domain of FANCF reveal a helical repeat structure similar to the Cand1 regulator of the Cul1-Rbx1-Skp1-Fbox(Skp2) ubiquitin ligase complex. Two C-terminal loops of FANCF are essential for monoubiquitination of FANCD2 and normal cellular resistance to the DNA cross-linking agent mitomycin C. FANCF mutants bearing amino acid substitutions in this C-terminal surface fail to interact with other components of the FA complex, indicating that this surface is critical for the proper assembly of the FA core complex.

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Organizational Affiliation: 

Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 23.55 kDa 
• Atom Count: 1,426 
• Modelled Residue Count: 173 
• Deposited Residue Count: 210 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fanconi anemia group F protein	A	210	Homo sapiens	Mutation(s): 0  Gene Names: FANCF
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NPI8 (Homo sapiens) Explore Q9NPI8  Go to UniProtKB:  Q9NPI8
PHAROS:  Q9NPI8 GTEx:  ENSG00000183161

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HG	B [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.255 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.386	α = 90
b = 96.386	β = 90
c = 47.963	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-07 
Deposition Author(s): Kowal, P., Gurtan, A.M., Stuckert, P., Lehmann, C., D'Andrea, A., Ellenberger, T.E.

Revision History  

• Version 1.0: 2006-11-07
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations