Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 21.45 kDa 
• Atom Count: 1582 
• Modelled Residue Count: 157 
• Deposited Residue Count: 184 
• Unique protein chains: 1

4LD1

Structural analysis of the microcephaly protein CPAP G-box domain suggests a role in centriole elongation.

• PDB DOI: 10.2210/pdb4LD1/pdb

• Classification: structural protein, protein binding
• Organism(s): Danio rerio
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-06-24 Released: 2013-09-04 
• Deposition Author(s): Hatzopoulos, G.N., Vakonakis, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free: 0.180 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 

Literature

Structural analysis of the G-box domain of the microcephaly protein CPAP suggests a role in centriole architecture.

Hatzopoulos, G.N., Erat, M.C., Cutts, E., Rogala, K.B., Slater, L.M., Stansfeld, P.J., Vakonakis, I.

(2013) Structure 21: 2069-2077

• PubMed: 24076405 
• DOI: 10.1016/j.str.2013.08.019
• Primary Citation of Related Structures:  
  4LD1, 4LD3, 4LZF


• PubMed Abstract: 
  

Centrioles are evolutionarily conserved eukaryotic organelles composed of a protein scaffold surrounded by sets of microtubules organized with a 9-fold radial symmetry. CPAP, a centriolar protein essential for microtubule recruitment, features a C-terminal domain of unknown structure, the G-box. A missense mutation in the G-box reduces affinity for the centriolar shuttling protein STIL and causes primary microcephaly. Here, we characterize the molecular architecture of CPAP and determine the G-box structure alone and in complex with a STIL fragment. The G-box comprises a single elongated β sheet capable of forming supramolecular assemblies. Structural and biophysical studies highlight the conserved nature of the CPAP-STIL complex. We propose that CPAP acts as a horizontal "strut" that joins the centriolar scaffold with microtubules, whereas G-box domains form perpendicular connections.

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Organizational Affiliation: 

Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A	184	Danio rerio	Mutation(s): 0  Gene Names: cenpj
UniProt
Find proteins for E7FCY1 (Danio rerio) Explore E7FCY1  Go to UniProtKB:  E7FCY1

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	D [auth A]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
PGE	C [auth A]	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N
MPD	E [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
NO3	B [auth A], F [auth A]	NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free: 0.180 
• R-Value Work: 0.154 
• R-Value Observed: 0.155 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.632	α = 90
b = 50.254	β = 108.56
c = 60.345	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
PHENIX	model building
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-06-24 
• Released Date: 2013-09-04 
Deposition Author(s): Hatzopoulos, G.N., Vakonakis, I.

Revision History  

• Version 1.0: 2013-09-04
  Type: Initial release
  
• Version 1.1: 2013-10-16
  Changes: Database references
• Version 1.2: 2013-12-18
  Changes: Database references
• Version 1.3: 2014-02-05
  Changes: Database references