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 
  • R-Value Observed: 0.242 

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 U S A 112: 6044-6049

  • DOI: 10.1073/pnas.1411718112
  • Primary Citation of Related Structures:  
    4PJ1

  • 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

    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.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
60 kDa heat shock protein, mitochondrialABCDEFGHIJKLMN558Homo sapiensMutation(s): 1 
Gene Names: HSPD1HSP60
EC: 5.6.1.7
Find proteins for P10809 (Homo sapiens)
Explore P10809 
Go to UniProtKB:  P10809
NIH Common Fund Data Resources
PHAROS  P10809
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
10 kDa heat shock protein, mitochondrial12OPQRSTUVWXYZ114Homo sapiensMutation(s): 0 
Gene Names: HSPE1
Find proteins for P61604 (Homo sapiens)
Explore P61604 
Go to UniProtKB:  P61604
NIH Common Fund Data Resources
PHAROS  P61604
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

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 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 
  • R-Value Observed: 0.242 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 199.1α = 90
b = 199.1β = 90
c = 627.39γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
PDB_EXTRACTdata extraction
MOLREPphasing
PHENIXrefinement
XSCALEdata scaling
Aimlessdata scaling

Structure Validation

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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
    Changes: Derived calculations
  • Version 1.2: 2015-05-20
    Changes: Database references
  • Version 1.3: 2017-11-22
    Changes: Database references, Derived calculations, Refinement description, Source and taxonomy