4N4P

Crystal Structure of N-acetylneuraminate lyase from Mycoplasma synoviae, crystal form I

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.175 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

GroEL/ES chaperonin modulates the mechanism and accelerates the rate of TIM-barrel domain folding.

Georgescauld, F., Popova, K., Gupta, A.J., Bracher, A., Engen, J.R., Hayer-Hartl, M., Hartl, F.U.

(2014) Cell 157: 922-934

  • DOI: 10.1016/j.cell.2014.03.038
  • Primary Citation of Related Structures:  
    4N4P, 4N4Q

  • PubMed Abstract: 

    • The GroEL/ES chaperonin system functions as a protein folding cage. Many obligate substrates of GroEL share the (βα)8 TIM-barrel fold, but how the chaperonin promotes folding of these proteins is not known. Here, we analyzed the folding of DapA at peptide resolution using hydrogen/deuterium exchange and mass spectrometry ...

    The GroEL/ES chaperonin system functions as a protein folding cage. Many obligate substrates of GroEL share the (βα)8 TIM-barrel fold, but how the chaperonin promotes folding of these proteins is not known. Here, we analyzed the folding of DapA at peptide resolution using hydrogen/deuterium exchange and mass spectrometry. During spontaneous folding, all elements of the DapA TIM barrel acquire structure simultaneously in a process associated with a long search time. In contrast, GroEL/ES accelerates folding more than 30-fold by catalyzing segmental structure formation in the TIM barrel. Segmental structure formation is also observed during the fast spontaneous folding of a structural homolog of DapA from a bacterium that lacks GroEL/ES. Thus, chaperonin independence correlates with folding properties otherwise enforced by protein confinement in the GroEL/ES cage. We suggest that folding catalysis by GroEL/ES is required by a set of proteins to reach native state at a biologically relevant timescale, avoiding aggregation or degradation.

    Organizational Affiliation: 

    Munich Center for Integrated Protein Science (CiPSM), Ludwig-Maximilians-Universität München, Butenandtstrasse 13, 81377 Munich, Germany.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Acylneuraminate lyaseA, B, C, D296Mycoplasmopsis synoviae 53Mutation(s): 0 
Gene Names: MS53_0198, nanA
EC: 4.1.3.3
UniProt
Find proteins for Q4A6K4 (Mycoplasma synoviae (strain 53))
Explore Q4A6K4 
Go to UniProtKB:  Q4A6K4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4A6K4
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.175 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.986α = 90
b = 136.35β = 90
c = 157.248γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-05-21
    Type: Initial release
  • Version 1.1: 2014-06-25
    Changes: Database references