8OJY

Arabidopsis thaliana Phosphoenolpyruvate carboxylase PPC1 T778 mutant with bound malate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Amino acid changes that deregulate PHOSPHOENOLPYRUVATE CARBOXYLASE in plants

Meyer, T.J.Sheng, J.Haesearts, S.Fausto, K.O'Leary, S.Loris, R.Larsen, P.B.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Phosphoenolpyruvate carboxylase 1
A, B, C
974Arabidopsis thalianaMutation(s): 1 
Gene Names: PPC1p107At1g53310F12M16.21
EC: 4.1.1.31
UniProt
Find proteins for Q9MAH0 (Arabidopsis thaliana)
Explore Q9MAH0 
Go to UniProtKB:  Q9MAH0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9MAH0
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
LMR (Subject of Investigation/LOI)
Query on LMR

Download Ideal Coordinates CCD File 
D [auth A],
H [auth B],
M [auth C]
(2S)-2-hydroxybutanedioic acid
C4 H6 O5
BJEPYKJPYRNKOW-REOHCLBHSA-N
PEG
Query on PEG

Download Ideal Coordinates CCD File 
F [auth A]
G [auth A]
J [auth B]
K [auth B]
L [auth B]
F [auth A],
G [auth A],
J [auth B],
K [auth B],
L [auth B],
Q [auth C],
R [auth C],
S [auth C],
T [auth C],
U [auth C],
V [auth C]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
E [auth A],
I [auth B],
N [auth C],
O [auth C],
P [auth C]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.198 
  • Space Group: I 41 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 241.779α = 90
b = 241.779β = 90
c = 394.689γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
United States Department of Agriculture (USDA)United States2021-67014-34888
Research Foundation - Flanders (FWO)BelgiumG011420N

Revision History  (Full details and data files)

  • Version 1.0: 2024-04-03
    Type: Initial release