4V4O

Crystal Structure of the Chaperonin Complex Cpn60/Cpn10/(ADP)7 from Thermus Thermophilus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of the native chaperonin complex from Thermus thermophilus revealed unexpected asymmetry at the cis-cavity

Shimamura, T.Koike-Takeshita, A.Yokoyama, K.Masui, R.Murai, N.Yoshida, M.Taguchi, H.Iwata, S.

(2004) STRUCTURE 12: 1471-1480

  • DOI: 10.1016/j.str.2004.05.020
  • Primary Citation of Related Structures:  1WE3, 1WF4

  • PubMed Abstract: 
  • The chaperonins GroEL and GroES are essential mediators of protein folding. GroEL binds nonnative protein, ATP, and GroES, generating a ternary complex in which protein folding occurs within the cavity capped by GroES (cis-cavity). We determined the ...

    The chaperonins GroEL and GroES are essential mediators of protein folding. GroEL binds nonnative protein, ATP, and GroES, generating a ternary complex in which protein folding occurs within the cavity capped by GroES (cis-cavity). We determined the crystal structure of the native GroEL-GroES-ADP homolog from Thermus thermophilus, with substrate proteins in the cis-cavity, at 2.8 A resolution. Twenty-four in vivo substrate proteins within the cis-cavity were identified from the crystals. The structure around the cis-cavity, which encapsulates substrate proteins, shows significant differences from that observed for the substrate-free Escherichia coli GroEL-GroES complex. The apical domain around the cis-cavity of the Thermus GroEL-GroES complex exhibits a large deviation from the 7-fold symmetry. As a result, the GroEL-GroES interface differs considerably from the previously reported E. coli GroEL-GroES complex, including a previously unknown contact between GroEL and GroES.


    Organizational Affiliation

    Department of Biological Sciences, Imperial College London, London SW7 2AZ, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
cpn60(GroEL)
A, B, C, D, E, F, G, H, I, J, K, L, M, N, a, b, c, d, e, f, g, h, i, j, k, l, m, n
543Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)Gene Names: groL (cpnL, groE, groEL, hsp60, mopA)
Find proteins for P61490 (Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
Go to UniProtKB:  P61490
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
cpn10(GroES)
O, P, Q, R, S, T, U, o, p, q, r, s, t, u
100Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)Gene Names: groS (chpS, groES, hsp10)
Find proteins for P61492 (Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
Go to UniProtKB:  P61492
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, a, B, b, c, C, d, D, e, E, f, F, G, g
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

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Download CCD File 
a, A, B, b, C, c, d, D, E, e, F, f, G, g
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
DMS
Query on DMS

Download SDF File 
Download CCD File 
h, H, i, I, J, j, K, k, L, l, m, M, N, n
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.239 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 140.378α = 82.88
b = 156.424β = 85.35
c = 273.153γ = 68.52
Software Package:
Software NamePurpose
DENZOdata reduction
CNSrefinement
AMoREphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-09
    Type: Initial release
  • Version 1.1: 2014-12-10
    Type: Other