8RNZ | pdb_00008rnz

Metal-binding domain 3 of copper-transporting ATPase RAN1 from Arabidopsis thaliana

• PDB DOI: https://doi.org/10.2210/pdb8RNZ/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-01-11 Released: 2025-01-29 
• Deposition Author(s): Minges, A., Dluhosch, D., Groth, G.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free: 
  0.235 (Depositor), 0.235 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.192 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: in silico

Literature

Exploring the Role of Individual Metal Binding Domains (MBDs) in Soluble and Membrane-bound Copper Chaperones for Metal Transport and Delivery to the ETR1 Ethylene Receptor in Arabidopsis thaliana

Dluhosch, D., Kersten, L.S., Minges, A., Smits, S.H.J., Gohlke, H., Groth, G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 23.04 kDa 
• Atom Count: 1,309 
• Modelled Residue Count: 155 
• Deposited Residue Count: 200 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Copper-transporting ATPase RAN1	A, B	100	Arabidopsis thaliana	Mutation(s): 0  Gene Names: RAN1, HMA7, At5g44790, K23L20.14, T19K24.18 EC: 7.2.2.8
UniProt
Find proteins for Q9S7J8 (Arabidopsis thaliana) Explore Q9S7J8  Go to UniProtKB:  Q9S7J8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free:  0.235 (Depositor), 0.235 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.192 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Diffraction Data: https://doi.org/10.5281/zenodo.10479001

Space Group: P 2₁ 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.755	α = 90
b = 51.481	β = 90
c = 62.722	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MxCuBE	data collection
DIALS	data reduction
DIALS	data scaling
PHASER	phasing
BUCCANEER	model building
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-29 
Deposition Author(s): Minges, A., Dluhosch, D., Groth, G.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	267205415/CRC 1208

Revision History  

• Version 1.0: 2025-01-29
  Type: Initial release
  
• Version 1.1: 2025-02-12
  Changes: Database references