6YRE

Transaldolase variant T30C/D211C from T. acidophilum

• PDB DOI: https://doi.org/10.2210/pdb6YRE/pdb

• Classification: TRANSFERASE
• Organism(s): Thermoplasma acidophilum DSM 1728
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2020-04-20 Released: 2021-05-12 
• Deposition Author(s): Sautner, V., Lietzow, T.H., Tittmann, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 0.214 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 

Starting Model: experimental

Literature

Large-scale motions underlie physical but not chemical steps in transaldolase mechanism: Substrate binding by conformational selection and rate-determining product release

Sautner, V., Lietzow, T.H., Klaus, M., Funk, L.M., Tittmann, K.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D5  (Explore in 3D)
Global Stoichiometry: Homo 10-mer - A10 

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

Biological Assembly Evidence: equilibrium centrifugation

Macromolecule Content

• Total Structure Weight: 123.27 kDa 
• Atom Count: 9,130 
• Modelled Residue Count: 1,093 
• Deposited Residue Count: 1,115 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable transaldolase	A, B, C, D, E	223	Thermoplasma acidophilum DSM 1728	Mutation(s): 2  Gene Names: tal, Ta0616 EC: 2.2.1.2
UniProt
Find proteins for Q9HKI3 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore Q9HKI3  Go to UniProtKB:  Q9HKI3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	F [auth A], H [auth B], J [auth C], K [auth C], M [auth D], N [auth E]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	G [auth A], I [auth B], L [auth C], O [auth E], P [auth E]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 0.214 
• R-Value Work: 0.183 
• R-Value Observed: 0.184 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 147.79	α = 90
b = 171.44	β = 90
c = 100.45	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-05-12 
Deposition Author(s): Sautner, V., Lietzow, T.H., Tittmann, K.

Revision History  

• Version 1.0: 2021-05-12
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary