6KPJ

298 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.56 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Temperature-Resolved Cryo-EM Uncovers Structural Bases of Temperature-Dependent Enzyme Functions.

Chen, C.Y.Chang, Y.C.Lin, B.L.Huang, C.H.Tsai, M.D.

(2019) J.Am.Chem.Soc. 141: 19983-19987

  • DOI: 10.1021/jacs.9b10687
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Protein functions are temperature-dependent, but protein structures are usually solved at a single (often low) temperature because of limitations on the conditions of crystal growth or protein vitrification. Here we demonstrate the feasibility of sol ...

    Protein functions are temperature-dependent, but protein structures are usually solved at a single (often low) temperature because of limitations on the conditions of crystal growth or protein vitrification. Here we demonstrate the feasibility of solving cryo-EM structures of proteins vitrified at high temperatures, solve 12 structures of an archaeal ketol-acid reductoisomerase (KARI) vitrified at 4-70 °C, and show that structures of both the Mg 2+ form (KARI:2Mg 2+ ) and its ternary complex (KARI:2Mg 2+ :NADH:inhibitor) are temperature-dependent in correlation with the temperature dependence of enzyme activity. Furthermore, structural analyses led to dissection of the induced-fit mechanism into ligand-induced and temperature-induced effects and to capture of temperature-resolved intermediates of the temperature-induced conformational change. The results also suggest that it is preferable to solve cryo-EM structures of protein complexes at functional temperatures. These studies should greatly expand the landscapes of protein structure-function relationships and enhance the mechanistic analysis of enzymatic functions.


    Organizational Affiliation

    Department of Life Sciences , National Central University , Taoyuan 32001 , Taiwan.,Institute of Biochemical Sciences , National Taiwan University , Taipei 106 , Taiwan.,Experimental Facility Division , National Synchrotron Radiation Research Center , Hsinchu 30076 , Taiwan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ketol-acid reductoisomerase
A, B, C, D, E, F, G, H, I, J, K, L
333Saccharolobus solfataricusMutation(s): 0 
Find proteins for A0A157T175 (Saccharolobus solfataricus)
Go to UniProtKB:  A0A157T175
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

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Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
NAI
Query on NAI

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Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L
1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
NADH
C21 H29 N7 O14 P2
BOPGDPNILDQYTO-NNYOXOHSSA-N
 Ligand Interaction
9TY
Query on 9TY

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L
cyclopropane-1,1-dicarboxylic acid
C5 H6 O4
FDKLLWKMYAMLIF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.56 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-03-25
    Type: Initial release