7U4S | pdb_00007u4s

Structure of Glyceraldehyde-3-Phosphate Dehydrogenase from Candida albicans

• PDB DOI: https://doi.org/10.2210/pdb7U4S/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Candida albicans WO-1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-02-28 Released: 2022-04-27 
• Deposition Author(s): Miranda, R.R., Silva, M., Iulek, J.
• Funding Organization(s): Brazilian National Council for Scientific and Technological Development (CNPq)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.68 Å
• R-Value Free: 
  0.286 (Depositor), 0.287 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.237 (DCC) 
• R-Value Observed: 
  0.239 (Depositor) 

Starting Model: experimental

Literature

Expression, purification, crystallization and structure of Glyceraldehyde-3-Phosphate Dehydrogenase from Candida albicans, main causative agent of candidiasis

Miranda, R.R., Silva, M., Iulek, J.

(2022) Chem Data Collect 39: 100860

• DOI: https://doi.org/10.1016/j.cdc.2022.100860

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 143.98 kDa 
• Atom Count: 10,110 
• Modeled Residue Count: 1,305 
• Deposited Residue Count: 1,340 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glyceraldehyde-3-phosphate dehydrogenase	A, B, C, D	335	Candida albicans WO-1	Mutation(s): 0  Gene Names: TDH1, GAP, TDH3, CAWG_02997 EC: 1.2.1.12
UniProt
Find proteins for Q92211 (Candida albicans (strain WO-1)) Explore Q92211  Go to UniProtKB:  Q92211

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth B], F [auth B], G [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
OCS	A, B, C, D	L-PEPTIDE LINKING	C3 H7 N O5 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.68 Å
• R-Value Free:  0.286 (Depositor), 0.287 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.237 (DCC) 
• R-Value Observed: 0.239 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.718	α = 90
b = 126.899	β = 100.322
c = 86.82	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-04-27 
Deposition Author(s): Miranda, R.R., Silva, M., Iulek, J.

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Funding Organization	Location	Grant Number
Brazilian National Council for Scientific and Technological Development (CNPq)	Brazil	573607/2008-7 and 08/57910-0

Revision History  

• Version 1.0: 2022-04-27
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2023-11-15
  Changes: Data collection