5JY5

Crystal structure of Thioredoxin 1 from Cryptococcus neoformans at 1.8 Angstroms resolution

• PDB DOI: https://doi.org/10.2210/pdb5JY5/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Cryptococcus neoformans var. grubii H99
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-05-13 Released: 2017-06-07 
• Deposition Author(s): Bravo-Chaucanes, C.P., Abadio, A.K.R., Kioshima, E.S., Felipe, M.S.S., Barbosa, J.A.R.G.
• Funding Organization(s): Brazilian National Council for Scientific and Technological Development (CNPq), FAPDF/CNPq

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.195 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 

Starting Model: experimental

Literature

Crystal structure of Thioredoxin 1 from Cryptococcus neoformans at 1.8 Angstroms resolution

Bravo-Chaucanes, C.P., Abadio, A.K.R., Kioshima, E.S., Felipe, M.S.S., Barbosa, J.A.R.G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 25.27 kDa 
• Atom Count: 2,074 
• Modelled Residue Count: 210 
• Deposited Residue Count: 220 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thioredoxin	A, B	110	Cryptococcus neoformans var. grubii H99	Mutation(s): 0  Gene Names: CNAG_02801
UniProt
Find proteins for J9VKF2 (Cryptococcus neoformans var. grubii serotype A (strain H99 / ATCC 208821 / CBS 10515 / FGSC 9487)) Explore J9VKF2  Go to UniProtKB:  J9VKF2

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TRS	G [auth B]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
SO4	E [auth A], H [auth B], I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	C [auth A], D [auth A], F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.195 
• R-Value Work: 0.156 
• R-Value Observed: 0.158 
• Space Group: P 6₄ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.706	α = 90
b = 110.706	β = 90
c = 91.763	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-06-07 
Deposition Author(s): Bravo-Chaucanes, C.P., Abadio, A.K.R., Kioshima, E.S., Felipe, M.S.S., Barbosa, J.A.R.G.

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Funding Organization	Location	Grant Number
Brazilian National Council for Scientific and Technological Development (CNPq)	Brazil	564007/2010-2
FAPDF/CNPq	Brazil	193.000.569/2009

Revision History  

• Version 1.0: 2017-06-07
  Type: Initial release
  
• Version 1.1: 2019-04-17
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2020-01-08
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-10-16
  Changes: Structure summary