1Z3Y | pdb_00001z3y

Structure of Gun4-1 from Thermosynechococcus elongatus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 
    0.208 (Depositor), 0.223 (DCC) 
  • R-Value Work: 
    0.181 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 
    0.182 (Depositor) 

Starting Model: other
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 1Z3Y

This is version 1.5 of the entry. See complete history

Literature

Structural and Biochemical Characterization of Gun4 Suggests a Mechanism for Its Role in Chlorophyll Biosynthesis(,).

Davison, P.A.Schubert, H.L.Reid, J.D.Iorg, C.D.Heroux, A.Hill, C.P.Hunter, C.N.

(2005) Biochemistry 44: 7603-7612

  • DOI: https://doi.org/10.1021/bi050240x
  • Primary Citation Related Structures: 
    1Z3X, 1Z3Y

  • PubMed Abstract: 

    Gun4 has been implicated in a developmental signaling pathway between the chloroplast and the nucleus involving magnesium protoporphyrin IX (MgP(IX)), the first dedicated intermediate in the chlorophyll biosynthetic pathway. Here we present the crystal structure of Thermosynechococcus elongatus Gun4 at 1.5 A, describe the binding affinities of Gun4 for substrate and product porphyrin molecules, and identify a likely (Mg)P(IX) binding site on the protein. Kinetic analyses show that Gun4 dramatically increases the efficiency of transformation of porphyrin substrate to metalloporphyrin product and that it also reduces the threshold Mg2+ concentration required for activity at low porphyrin concentration. Gun4 therefore controls magnesium chelatase at physiologically significant Mg2+ concentrations and likely acts as a molecular switch in vivo so that in its absence magnesium chelatase is inactive. This mechanism could allow Gun4 to mediate magnesium protoporphyrin levels both for chlorophyll biosynthesis and for signaling to the nucleus.


  • Organizational Affiliation
    • Department of Molecular Biology and Biotechnology, University of Sheffield, Sheffield S10 2TN, UK.

Macromolecule Content 

  • Total Structure Weight: 27.41 kDa 
  • Atom Count: 2,205 
  • Modeled Residue Count: 236 
  • Deposited Residue Count: 238 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
putative cytidylyltransferase238Thermosynechococcus vestitusMutation(s): 1 
Gene Names: Gun4
UniProt
Find proteins for Q8DIJ1 (Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1))
Explore Q8DIJ1 
Go to UniProtKB:  Q8DIJ1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8DIJ1
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free:  0.208 (Depositor), 0.223 (DCC) 
  • R-Value Work:  0.181 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 0.182 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.307α = 90
b = 40.668β = 115.63
c = 61.861γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-06-07
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-10-20
    Changes: Database references
  • Version 1.4: 2024-02-14
    Changes: Data collection
  • Version 1.5: 2024-04-03
    Changes: Refinement description