4PJ1

Crystal structure of the human mitochondrial chaperonin symmetrical 'football' complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.15 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.241 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of the human mitochondrial chaperonin symmetrical football complex.

Nisemblat, S.Yaniv, O.Parnas, A.Frolow, F.Azem, A.

(2015) Proc.Natl.Acad.Sci.USA 112: 6044-6049

  • DOI: 10.1073/pnas.1411718112

  • PubMed Abstract: 
  • Human mitochondria harbor a single type I chaperonin system that is generally thought to function via a unique single-ring intermediate. To date, no crystal structure has been published for any mammalian type I chaperonin complex. In this study, we d ...

    Human mitochondria harbor a single type I chaperonin system that is generally thought to function via a unique single-ring intermediate. To date, no crystal structure has been published for any mammalian type I chaperonin complex. In this study, we describe the crystal structure of a football-shaped, double-ring human mitochondrial chaperonin complex at 3.15 Å, which is a novel intermediate, likely representing the complex in an early stage of dissociation. Interestingly, the mitochondrial chaperonin was captured in a state that exhibits subunit asymmetry within the rings and nucleotide symmetry between the rings. Moreover, the chaperonin tetradecamers show a different interring subunit arrangement when compared to GroEL. Our findings suggest that the mitochondrial chaperonins use a mechanism that is distinct from the mechanism of the well-studied Escherichia coli system.


    Related Citations: 
    • Crystallization and structure determination of a symmetrical 'football' complex of the mammalian mitochondrial Hsp60-Hsp10 chaperonins.
      Nisemblat, S.,Parnas, A.,Yaniv, O.,Azem, A.,Frolow, F.
      (2014) Acta Crystallogr F Struct Biol Commun 70: 116


    Organizational Affiliation

    The Daniella Rich Institute for Structural Biology, The George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel Molecular Microbiology and Biotechnology, and.,Departments of Biochemistry and Molecular Biology and The Daniella Rich Institute for Structural Biology, The George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel azema@tauex.tau.ac.il.,Departments of Biochemistry and Molecular Biology and The Daniella Rich Institute for Structural Biology, The George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
60 kDa heat shock protein, mitochondrial
A, B, C, D, E, F, G, H, I, J, K, L, M, N
558Homo sapiensMutation(s): 1 
Gene Names: HSPD1 (HSP60)
EC: 5.6.1.7
Find proteins for P10809 (Homo sapiens)
Go to Gene View: HSPD1
Go to UniProtKB:  P10809
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
10 kDa heat shock protein, mitochondrial
O, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 2
114Homo sapiensMutation(s): 0 
Gene Names: HSPE1
Find proteins for P61604 (Homo sapiens)
Go to Gene View: HSPE1
Go to UniProtKB:  P61604
Small Molecules
Ligands 2 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, J, K, L, M, N
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L, M, N
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.15 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.241 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 199.100α = 90.00
b = 199.100β = 90.00
c = 627.390γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
Aimlessdata scaling
MOLREPphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Morasha ISFIsrael1902/08
Eshkol Fellowship to Shahar NissemblatIsrael--

Revision History 

  • Version 1.0: 2015-04-29
    Type: Initial release
  • Version 1.1: 2015-05-13
    Type: Derived calculations
  • Version 1.2: 2015-05-20
    Type: Database references
  • Version 1.3: 2017-11-22
    Type: Database references, Derived calculations, Refinement description, Source and taxonomy