7Y55 | pdb_00007y55

Crystal structure of a glutathione S-transferase Tau1 from Pinus densata in complex with GSH

• PDB DOI: https://doi.org/10.2210/pdb7Y55/pdb

• Classification: TRANSFERASE
• Organism(s): Pinus densata
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-06-16 Released: 2022-12-07 
• Deposition Author(s): Qu, C., Zeng, Q.Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 
  0.302 (Depositor), 0.302 (DCC) 
• R-Value Work: 
  0.276 (Depositor), 0.278 (DCC) 
• R-Value Observed: 
  0.277 (Depositor) 

Starting Model: experimental

Literature

Functional significance of asymmetrical retention of parental alleles in a hybrid pine species complex

Qu, C., Kao, H.N., Xu, H., Wang, B.S., Yang, Z.L., Yang, Q., Liu, G.F., Wang, X.R., Liu, Y.J., Zeng, Q.Y.

(2023) J Syst Evol n/a

• DOI: https://doi.org/10.1111/jse.12953

Biological Assembly 1  

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

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

Biological Assembly Evidence: mass spectrometry

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 111.23 kDa 
• Atom Count: 7,510 
• Modeled Residue Count: 892 
• Deposited Residue Count: 948 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PdGSTU1	A, B, C, D	237	Pinus densata	Mutation(s): 0  EC: 2.5.1.18
UniProt
Find proteins for A0A9E8RZN7 (Pinus densata) Explore A0A9E8RZN7  Go to UniProtKB:  A0A9E8RZN7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GSH (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	Glutathione C10 H17 N3 O6 S RWSXRVCMGQZWBV-WDSKDSINSA-N

Biologically Interesting Molecules (External Reference) 

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002593 (GSH)	E [auth A], F [auth B], G [auth C], H [auth D]	Glutathione	Peptide-like / Oxidation-reduction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free:  0.302 (Depositor), 0.302 (DCC) 
• R-Value Work:  0.276 (Depositor), 0.278 (DCC) 
• R-Value Observed: 0.277 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 166.402	α = 90
b = 55.509	β = 112.498
c = 119.754	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
PHENIX	phasing
HKL-3000	data scaling

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-12-07 
Deposition Author(s): Qu, C., Zeng, Q.Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2022-12-07
  Type: Initial release
  
• Version 1.1: 2023-06-21
  Changes: Database references, Refinement description
• Version 1.2: 2023-11-29
  Changes: Data collection, Refinement description