7YVZ

Structure of Caenorhabditis elegans CISD-1/mitoNEET

• PDB DOI:  https://doi.org/10.2210/pdb7YVZ/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Caenorhabditis elegans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-08-20 Released: 2022-10-19 
• Deposition Author(s): Hasegawa, K., Hagiuda, E., Taguchi, A.T., Geldenhuys, W., Iwasaki, T., Kumasaka, T.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.189 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 

Literature

Structure and biological evaluation of Caenorhabditis elegans CISD-1/mitoNEET, a KLP-17 tail domain homologue, supports attenuation of paraquat-induced oxidative stress through a p38 MAPK-mediated antioxidant defense response

Boos, J.R., Jandrain, H.N., Hagiuda, E., Taguchi, A.T., Hasegawa, K., Fedun, B.L., Taylor, S.J., Elad, S.M., Faber, S.E., Kumasaka, T., Iwasaki, T., Geldenhuys, W.J.

(2022) Advances In Redox Research 6: 100048

• DOI: https://doi.org/10.1016/j.arres.2022.100048

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 9.81 kDa 
• Atom Count: 510 
• Modelled Residue Count: 63 
• Deposited Residue Count: 85 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CDGSH iron-sulfur domain-containing protein 1 (CISD-1/mitoNEET)	A	85	Caenorhabditis elegans	Mutation(s): 0  Gene Names: cisd-1, CELE_W02B12.15, W02B12.15
UniProt
Find proteins for A7LPG5 (Caenorhabditis elegans) Explore A7LPG5  Go to UniProtKB:  A7LPG5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FES (Subject of Investigation/LOI)	B [auth A]	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.189 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.798	α = 90
b = 37.798	β = 90
c = 82.26	γ = 90

Software Package:

Software Name	Purpose
BSS	data collection
XDS	data reduction
PHASER	phasing
Coot	model building
PHENIX	refinement
XDS	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-10-19 
Deposition Author(s): Hasegawa, K., Hagiuda, E., Taguchi, A.T., Geldenhuys, W., Iwasaki, T., Kumasaka, T.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	24659202
Japan Society for the Promotion of Science (JSPS)	Japan	26670215
Japan Society for the Promotion of Science (JSPS)	Japan	2604415
Other private		--

Revision History  

• Version 1.0: 2022-10-19
  Type: Initial release