6ETD

The Structure of the Mo-insertase domain Cnx1E from Arabidopsis thaliana in complex with AMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.723 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.177 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

The functional principle of eukaryotic molybdenum insertases.

Krausze, J.Hercher, T.W.Zwerschke, D.Kirk, M.L.Blankenfeldt, W.Mendel, R.R.Kruse, T.

(2018) Biochem. J. 475: 1739-1753

  • DOI: 10.1042/BCJ20170935
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The molybdenum cofactor (Moco) is a redox-active prosthetic group found in the active site of Moco-dependent enzymes, which are vitally important for life. Moco biosynthesis involves several enzymes that catalyze the subsequent conversion of GTP into ...

    The molybdenum cofactor (Moco) is a redox-active prosthetic group found in the active site of Moco-dependent enzymes, which are vitally important for life. Moco biosynthesis involves several enzymes that catalyze the subsequent conversion of GTP into cyclic pyranopterin monophosphate (cPMP), molybdopterin (MPT), adenylated MPT (MPT-AMP), and finally Moco. While the underlying principles of cPMP, MPT, and MPT-AMP formation are well understood, the molybdenum insertase (Mo-insertase)-catalyzed final Moco maturation step is not. In the present study, we analyzed high-resolution X-ray datasets of the plant Mo-insertase Cnx1E that revealed two molybdate-binding sites within the active site, hence improving the current view on Cnx1E functionality. The presence of molybdate anions in either of these sites is tied to a distinctive backbone conformation, which we suggest to be essential for Mo-insertase molybdate selectivity and insertion efficiency.


    Organizational Affiliation

    Department for Biotechnology, Institute of Biochemistry, Biotechnology and Bioinformatics, Braunschweig University of Technology, Spielmannstrasse 7, 38106 Braunschweig, Germany.,Department of Plant Biology, Braunschweig University of Technology, 38106 Braunschweig, Germany.,Department of Plant Biology, Braunschweig University of Technology, 38106 Braunschweig, Germany t.kruse@tu-bs.de.,Department of Chemistry and Chemical Biology, The University of New Mexico, MSC03 2060, 1 University of New Mexico, Albuquerque, NM 87131-0001, U.S.A.,Structure and Function of Proteins, Helmholtz Centre for Infection Research, Inhoffenstrasse 7, 38124 Braunschweig, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Molybdopterin biosynthesis protein CNX1
A
471Arabidopsis thalianaMutation(s): 0 
Gene Names: CNX1
Find proteins for Q39054 (Arabidopsis thaliana)
Go to UniProtKB:  Q39054
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
AMP
Query on AMP

Download SDF File 
Download CCD File 
A
ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
 Ligand Interaction
ACE
Query on ACE

Download SDF File 
Download CCD File 
A
ACETYL GROUP
C2 H4 O
IKHGUXGNUITLKF-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CSX
Query on CSX
A
L-PEPTIDE LINKINGC3 H7 N O3 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.723 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.177 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 66.130α = 90.00
b = 123.640β = 90.00
c = 132.110γ = 90.00
Software Package:
Software NamePurpose
BUSTERrefinement
MxCuBEdata collection
PHASERphasing
STARANISOdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2017-10-26 
  • Released Date: 2018-07-18 
  • Deposition Author(s): Krausze, J.

Revision History 

  • Version 1.0: 2018-07-18
    Type: Initial release