1P3H

Crystal Structure of the Mycobacterium tuberculosis chaperonin 10 tetradecamer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.259 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Mycobacterium tuberculosis chaperonin 10 heptamers self-associate through their biologically active loops

Roberts, M.M.Coker, A.R.Fossati, G.Mascagni, P.Coates, A.R.M.Wood, S.P.

(2003) J.BACTERIOL. 185: 4172-4185


  • PubMed Abstract: 
  • The crystal structure of Mycobacterium tuberculosis chaperonin 10 (cpn10(Mt)) has been determined to a resolution of 2.8 A. Two dome-shaped cpn10(Mt) heptamers complex through loops at their bases to form a tetradecamer with 72 symmetry and a spheric ...

    The crystal structure of Mycobacterium tuberculosis chaperonin 10 (cpn10(Mt)) has been determined to a resolution of 2.8 A. Two dome-shaped cpn10(Mt) heptamers complex through loops at their bases to form a tetradecamer with 72 symmetry and a spherical cage-like structure. The hollow interior enclosed by the tetradecamer is lined with hydrophilic residues and has dimensions of 30 A perpendicular to and 60 A along the sevenfold axis. Tetradecameric cpn10(Mt) has also been observed in solution by dynamic light scattering. Through its base loop sequence cpn10(Mt) is known to be the agent in the bacterium responsible for bone resorption and for the contribution towards its strong T-cell immunogenicity. Superimposition of the cpn10(Mt) sequences 26 to 32 and 66 to 72 and E. coli GroES 25 to 31 associated with bone resorption activity shows them to have similar conformations and structural features, suggesting that there may be a common receptor for the bone resorption sequences. The base loops of cpn10s in general also attach to the corresponding chaperonin 60 (cpn60) to enclose unfolded protein and to facilitate its correct folding in vivo. Electron density corresponding to a partially disordered protein subunit appears encapsulated within the interior dome cavity of each heptamer. This suggests that the binding of substrates to cpn10 is possible in the absence of cpn60.


    Related Citations: 
    • Crystallization, X-ray diffraction and preliminary structure analysis of Mycobacterium tuberculosis chaperonin 10
      Roberts, M.M.,Coker, A.R.,Fossati, G.,Mascagni, P.,Coates, A.R.M.,Wood, S.P.
      (1999) Acta Crystallogr.,Sect.D 55: 910
    • Mycobacterium tuberculosis chaperonin 10 stimulates bone resorption: A potential contributory factor in Pott's Disease
      Meghji, S.,White, P.A.,Nair, S.P.,Reddi, K.,Heron, K.,Henderson, B.,Zaliani, A.,Fossati, G.,Mascagni, P.,Hunt, J.F.,Roberts, M.M.,Coates, A.R.M.
      (1997) J.EXP.MED. 186: 1241


    Organizational Affiliation

    Medical Microbiology, Department of Cellular and Molecular Medicine, St. George's Hospital Medical School, London SW17 0RE, England. m.roberts@sghms.ac.uk




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
10 kDa chaperonin
A, B, C, D, E, F, G, H, I, J, K, L, M, N
99Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)Mutation(s): 0 
Gene Names: groS (cpn10, groES, mopB)
Find proteins for P9WPE5 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Go to UniProtKB:  P9WPE5
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
MPD
Query on MPD

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L, M, N
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.259 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 76.460α = 90.00
b = 87.930β = 106.78
c = 124.390γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
DMmodel building
TRUNCATEdata reduction
CCP4data scaling
DMphasing
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-07-15
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Advisory, Refinement description