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

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.53 Å
R-Value Free:
0.271 (Depositor), 0.271 (DCC)
R-Value Work:
0.218 (Depositor), 0.219 (DCC)
R-Value Observed:
0.221 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Structure of PARC6 from Arabidopsis

Feng, Y., Liu, Z.

To be published.

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

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8VY16
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.53 Å
R-Value Free: 0.271 (Depositor), 0.271 (DCC)
R-Value Work: 0.218 (Depositor), 0.219 (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

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Entry History

& Funding Information

Deposition Data

Released Date: 2020-05-06

Deposition Author(s):

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 (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.