5E4W

Crystal structure of cpSRP43 chromodomains 2 and 3 in complex with the Alb3 tail


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural basis for cpSRP43 chromodomain selectivity and dynamics in Alb3 insertase interaction.

Horn, A.Hennig, J.Ahmed, Y.L.Stier, G.Wild, K.Sattler, M.Sinning, I.

(2015) Nat Commun 6: 8875-8875

  • DOI: 10.1038/ncomms9875
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Canonical membrane protein biogenesis requires co-translational delivery of ribosome-associated proteins to the Sec translocase and depends on the signal recognition particle (SRP) and its receptor (SR). In contrast, high-throughput delivery of abund ...

    Canonical membrane protein biogenesis requires co-translational delivery of ribosome-associated proteins to the Sec translocase and depends on the signal recognition particle (SRP) and its receptor (SR). In contrast, high-throughput delivery of abundant light-harvesting chlorophyll a,b-binding proteins (LHCPs) in chloroplasts to the Alb3 insertase occurs post-translationally via a soluble transit complex including the cpSRP43/cpSRP54 heterodimer (cpSRP). Here we describe the molecular mechanisms of tethering cpSRP to the Alb3 insertase by specific interaction of cpSRP43 chromodomain 3 with a linear motif in the Alb3 C-terminal tail. Combining NMR spectroscopy, X-ray crystallography and biochemical analyses, we dissect the structural basis for selectivity of chromodomains 2 and 3 for their respective ligands cpSRP54 and Alb3, respectively. Negative cooperativity in ligand binding can be explained by dynamics in the chromodomain interface. Our study provides a model for membrane recruitment of the transit complex and may serve as a prototype for a functional gain by the tandem arrangement of chromodomains.


    Organizational Affiliation

    Institute of Structural Biology, Helmholtz Center Munich, Ingolstädter Landstrasse 1, Neuherberg D-85764, Germany.,Center for Integrated Protein Science Munich at Biomolecular NMR Spectroscopy, Department Chemie, Technische Universität München, Lichtenbergstrasse 4, Garching DE-85747, Germany.,Heidelberg University Biochemistry Center (BZH), INF 328, Heidelberg D-69120, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Thioredoxin-1
A, B
109Escherichia coli O157:H7Mutation(s): 0 
Gene Names: trxA
Find proteins for P0AA27 (Escherichia coli O157:H7)
Go to UniProtKB:  P0AA27
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Signal recognition particle 43 kDa protein, chloroplastic
C, D
105Arabidopsis thalianaMutation(s): 0 
Gene Names: CAO (CPSRP43)
Find proteins for O22265 (Arabidopsis thaliana)
Go to UniProtKB:  O22265
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Inner membrane protein ALBINO3, chloroplastic
E, F
9Arabidopsis thalianaMutation(s): 0 
Gene Names: ALB3
Find proteins for Q8LBP4 (Arabidopsis thaliana)
Go to UniProtKB:  Q8LBP4
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
B, D
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
C, D
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 79.592α = 90.00
b = 163.668β = 90.00
c = 37.430γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
PHENIXrefinement
MOLREPphasing
XDSdata reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-12-02
    Type: Initial release