3KO1

Cystal structure of thermosome from Acidianus tengchongensis strain S5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.7 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.277 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of group II chaperonin in the open state.

Huo, Y.Hu, Z.Zhang, K.Wang, L.Zhai, Y.Zhou, Q.Lander, G.Zhu, J.He, Y.Pang, X.Xu, W.Bartlam, M.Dong, Z.Sun, F.

(2010) Structure 18: 1270-1279

  • DOI: 10.1016/j.str.2010.07.009

  • PubMed Abstract: 
  • Thermosomes are group II chaperonins responsible for protein refolding in an ATP-dependent manner. Little is known regarding the conformational changes of thermosomes during their functional cycle due to a lack of high-resolution structure in the ope ...

    Thermosomes are group II chaperonins responsible for protein refolding in an ATP-dependent manner. Little is known regarding the conformational changes of thermosomes during their functional cycle due to a lack of high-resolution structure in the open state. Here, we report the first complete crystal structure of thermosome (rATcpnβ) in the open state from Acidianus tengchongensis. There is a ∼30° rotation of the apical and lid domains compared with the previous closed structure. Besides, the structure reveals a conspicuous hydrophobic patch in the lid domain, and residues locating in this patch are conserved across species. Both the closed and open forms of rATcpnβ were also reconstructed by electron microscopy (EM). Structural fitting revealed the detailed conformational change from the open to the closed state. Structural comparison as well as protease K digestion indicated only ATP binding without hydrolysis does not induce chamber closure of thermosome.


    Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chaperonin
A, B, C, D, E, F, G, H, I
553Acidianus tengchongensisMutation(s): 0 
Find proteins for Q877H2 (Acidianus tengchongensis)
Go to UniProtKB:  Q877H2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.7 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.277 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 223.674α = 90.00
b = 283.042β = 133.90
c = 160.750γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
ADSCdata collection
REFMACrefinement
MOSFLMdata reduction
CNSrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-11-03
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance