4GU5 | pdb_00004gu5

Structure of Full-length Drosophila Cryptochrome

• PDB DOI: https://doi.org/10.2210/pdb4GU5/pdb
• Entry: 4GU5 supersedes: 3TVS

• Classification: SIGNALING PROTEIN
• Organism(s): Drosophila melanogaster
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2012-08-29 Released: 2012-09-26 
• Deposition Author(s): Zoltowski, B.D., Vaidya, A.T., Top, D., Widom, J., Young, M.W., Levy, C., Jones, A.R., Scrutton, N.S., Leys, D., Crane, B.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.247 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Starting Model: experimental

Literature

Updated structure of Drosophila cryptochrome.

Levy, C., Zoltowski, B.D., Jones, A.R., Vaidya, A.T., Top, D., Widom, J., Young, M.W., Scrutton, N.S., Crane, B.R., Leys, D.

(2013) Nature 495: E3-E4

• PubMed: 23518567 
• DOI: https://doi.org/10.1038/nature11995
• Primary Citation of Related Structures:  
  4GU5

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Organizational Affiliation: 

Manchester Institute of Biotechnology, Faculty of Life Sciences, University of Manchester, 131 Princess Street, Manchester M1 7DN, UK.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 126.2 kDa 
• Atom Count: 9,186 
• Modelled Residue Count: 1,075 
• Deposited Residue Count: 1,078 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cryptochrome-1	A, B	539	Drosophila melanogaster	Mutation(s): 0  Gene Names: CG3772, cry
UniProt
Find proteins for O77059 (Drosophila melanogaster) Explore O77059  Go to UniProtKB:  O77059

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	D [auth A], F [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
MG	C [auth A], E [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.247 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.75	α = 90
b = 122.32	β = 114.92
c = 75.03	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-09-26 
Deposition Author(s): Zoltowski, B.D., Vaidya, A.T., Top, D., Widom, J., Young, M.W., Levy, C., Jones, A.R., Scrutton, N.S., Leys, D., Crane, B.R.
• This entry supersedes: 3TVS

Revision History  

• Version 1.0: 2012-09-26
  Type: Initial release
  
• Version 1.1: 2013-03-20
  Changes: Database references
• Version 1.2: 2013-04-03
  Changes: Database references
• Version 1.3: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2024-10-16
  Changes: Structure summary