3W6X

Yeast N-acetyltransferase Mpr1 in complex with CHOP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.299 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.166 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural and functional analysis of the yeast N-acetyltransferase Mpr1 involved in oxidative stress tolerance via proline metabolism

Nasuno, R.Hirano, Y.Itoh, T.Hakoshima, T.Hibi, T.Takagi, H.

(2013) Proc.Natl.Acad.Sci.USA 110: 11821-11826

  • DOI: 10.1073/pnas.1300558110
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Mpr1 (sigma1278b gene for proline-analog resistance 1), which was originally isolated as N-acetyltransferase detoxifying the proline analog L-azetidine-2-carboxylate, protects yeast cells from various oxidative stresses. Mpr1 mediates the L-proline a ...

    Mpr1 (sigma1278b gene for proline-analog resistance 1), which was originally isolated as N-acetyltransferase detoxifying the proline analog L-azetidine-2-carboxylate, protects yeast cells from various oxidative stresses. Mpr1 mediates the L-proline and L-arginine metabolism by acetylating L-Δ(1)-pyrroline-5-carboxylate, leading to the L-arginine-dependent production of nitric oxide, which confers oxidative stress tolerance. Mpr1 belongs to the Gcn5-related N-acetyltransferase (GNAT) superfamily, but exhibits poor sequence homology with the GNAT enzymes and unique substrate specificity. Here, we present the X-ray crystal structure of Mpr1 and its complex with the substrate cis-4-hydroxy-L-proline at 1.9 and 2.3 Å resolution, respectively. Mpr1 is folded into α/β-structure with eight-stranded mixed β-sheets and six α-helices. The substrate binds to Asn135 and the backbone amide of Asn172 and Leu173, and the predicted acetyl-CoA-binding site is located near the backbone amide of Phe138 and the side chain of Asn178. Alanine substitution of Asn178, which can interact with the sulfur of acetyl-CoA, caused a large reduction in the apparent kcat value. The replacement of Asn135 led to a remarkable increase in the apparent Km value. These results indicate that Asn178 and Asn135 play an important role in catalysis and substrate recognition, respectively. Such a catalytic mechanism has not been reported in the GNAT proteins. Importantly, the amino acid substitutions in these residues increased the L-Δ(1)-pyrroline-5-carboxylate level in yeast cells exposed to heat stress, indicating that these residues are also crucial for its physiological functions. These studies provide some benefits of Mpr1 applications, such as the breeding of industrial yeasts and the development of antifungal drugs.


    Related Citations: 
    • Crystallization and preliminary crystallographic analysis of N-acetyltransferase Mpr1 from Saccharomyces cerevisiae
      Hibi, T.,Yamamoto, H.,Nakamura, G.,Takagi, H.
      (2009) Acta Crystallogr.,Sect.F 65: 169


    Organizational Affiliation

    Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MPR1 protein
A, B, C, D, E, F, G, H, I, J, K, L
229Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: MPR1
EC: 2.3.1.271
Find proteins for E9P8D2 (Saccharomyces cerevisiae)
Go to UniProtKB:  E9P8D2
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
D, E, G, H
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
HZP
Query on HZP

Download SDF File 
Download CCD File 
A, B, C, F
(4S)-4-hydroxy-L-proline
C5 H9 N O3
PMMYEEVYMWASQN-IMJSIDKUSA-N
 Ligand Interaction
P6G
Query on P6G

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L
HEXAETHYLENE GLYCOL
POLYETHYLENE GLYCOL PEG400
C12 H26 O7
IIRDTKBZINWQAW-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.299 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.166 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 80.345α = 90.00
b = 229.340β = 90.94
c = 84.755γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
PHENIXphasing
PHENIXrefinement
MOSFLMdata reduction
ADSCdata collection
PHENIXmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-08-07
    Type: Initial release