6JZF | pdb_00006jzf

Structure of the intermembrane space region of PARC6

• PDB DOI: https://doi.org/10.2210/pdb6JZF/pdb

• Classification: PROTEIN BINDING
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-05-01 Released: 2020-05-06 
• Deposition Author(s): Feng, Y., Liu, Z.
• Funding Organization(s): National Natural Science Foundation of China

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.53 Å
• R-Value Free: 
  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.218 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Starting Model: experimental

Literature

Structure of PARC6 from Arabidopsis

Feng, Y., Liu, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 40.92 kDa 
• Atom Count: 2,460 
• Modeled Residue Count: 301 
• Deposited Residue Count: 360 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Plastid division protein CDP1, chloroplastic	A, B	180	Arabidopsis thaliana	Mutation(s): 0  Gene Names: CDP1, ARC6H, PARC6, At3g19180, MVI11.9
UniProt
Find proteins for Q8VY16 (Arabidopsis thaliana) Explore Q8VY16  Go to UniProtKB:  Q8VY16

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.53 Å
• R-Value Free:  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.218 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.128	α = 90
b = 121.669	β = 90
c = 130.206	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Blu-Ice	data collection
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-05-06 
Deposition Author(s): Feng, Y., Liu, Z.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	31822012
National Natural Science Foundation of China	China	31670766
National Natural Science Foundation of China		31400635

Revision History  

• Version 1.0: 2020-05-06
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary