5E4W

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 
  • R-Value Observed: 0.252 

wwPDB Validation 3D Report Full Report



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:  
    5E4W, 5E4X, 2N88

  • 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

    Heidelberg University Biochemistry Center (BZH), INF 328, Heidelberg D-69120, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Thioredoxin-1A, B109Escherichia coli O157:H7Mutation(s): 0 
Gene Names: trxAZ5291ECs4714
Find proteins for P0AA27 (Escherichia coli O157:H7)
Explore P0AA27 
Go to UniProtKB:  P0AA27
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Signal recognition particle 43 kDa protein, chloroplasticC, D105Arabidopsis thalianaMutation(s): 0 
Gene Names: CAOCPSRP43At2g47450T30B22.25
Find proteins for O22265 (Arabidopsis thaliana)
Explore O22265 
Go to UniProtKB:  O22265
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Inner membrane protein ALBINO3, chloroplasticE, F9Arabidopsis thalianaMutation(s): 0 
Gene Names: ALB3At2g28800F8N16.9
Find proteins for Q8LBP4 (Arabidopsis thaliana)
Explore Q8LBP4 
Go to UniProtKB:  Q8LBP4
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download CCD File 
B, D
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.249 
  • R-Value Observed: 0.252 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.592α = 90
b = 163.668β = 90
c = 37.43γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

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