1WA9 | pdb_00001wa9

Crystal Structure of the PAS repeat region of the Drosophila clock protein PERIOD

• PDB DOI: https://doi.org/10.2210/pdb1WA9/pdb

• Classification: CIRCADIAN RHYTHM
• Organism(s): Drosophila melanogaster
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-10-25 Released: 2005-01-12 
• Deposition Author(s): Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., Wolf, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.15 Å
• R-Value Free: 
  0.277 (Depositor), 0.265 (DCC) 
• R-Value Work: 
  0.228 (Depositor), 0.219 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Crystal Structure and Interactions of the Pas Repeat Region of the Drosophila Clock Protein Period

Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., Wolf, E.

(2005) Mol Cell 17: 69

• PubMed: 15629718 
• DOI: https://doi.org/10.1016/j.molcel.2004.11.022
• Primary Citation Related Structures: 
  1WA9


• PubMed Abstract: 
  

  PERIOD proteins are central components of the Drosophila and mammalian circadian clock. Their function is controlled by daily changes in synthesis, cellular localization, phosphorylation, degradation, as well as specific interactions with other clock components. Here we present the crystal structure of a Drosophila PERIOD (dPER) fragment comprising two tandemly organized PAS (PER-ARNT-SIM) domains (PAS-A and PAS-B) and two additional C-terminal alpha helices (alphaE and alphaF). Our analysis reveals a noncrystallographic dPER dimer mediated by intermolecular interactions of PAS-A with PAS-B and helix alphaF. We show that alphaF is essential for dPER homodimerization and that the PAS-A-alphaF interaction plays a crucial role in dPER clock function, as it is affected by the 29 hr long-period perL mutation.

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Organizational Affiliation: 
• Department of Structural Biology, Max-Planck-Institute for Molecular Physiology, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 82.91 kDa 
• Atom Count: 5,039 
• Modeled Residue Count: 637 
• Deposited Residue Count: 736 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PERIOD CIRCADIAN PROTEIN	A, B	368	Drosophila melanogaster	Mutation(s): 0
UniProt
Find proteins for P07663 (Drosophila melanogaster) Explore P07663  Go to UniProtKB:  P07663

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.15 Å
• R-Value Free:  0.277 (Depositor), 0.265 (DCC) 
• R-Value Work:  0.228 (Depositor), 0.219 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.44	α = 90
b = 140.44	β = 90
c = 61.45	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
XDS	data reduction
XSCALE	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-01-12 
Deposition Author(s): Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., Wolf, E.

Revision History  

• Version 1.0: 2005-01-12
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-05-08
  Changes: Data collection, Database references, Other