7VTR | pdb_00007vtr

3-ketoacyl-CoA thiolase Tfu_0875

• PDB DOI: https://doi.org/10.2210/pdb7VTR/pdb

• Classification: TRANSFERASE
• Organism(s): Thermobifida fusca YX
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2021-10-30 Released: 2022-11-02 
• Deposition Author(s): Liu, L.X., Zhou, S.H., Deng, Y.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free: 
  0.215 (Depositor), 0.215 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.180 (Depositor) 

Starting Model: experimental

Literature

Rational Design of the Substrate Tunnel of beta-Ketothiolase Reveals a Local Cationic Domain Modulated Rule that Improves the Efficiency of Claisen Condensation

Liu, L., Zhou, S., Deng, Y.

(2023) ACS Catal 13: 8183-8194

• DOI: https://doi.org/10.1021/acscatal.3c01426

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)

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content 

• Total Structure Weight: 162.44 kDa 
• Atom Count: 12,769 
• Modeled Residue Count: 1,564 
• Deposited Residue Count: 1,564 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thiolase	A, B, C, D	391	Thermobifida fusca YX	Mutation(s): 0  Gene Names: Tfu_0875 EC: 2.3.1.16 (PDB Primary Data), 2.3.1.9 (UniProt)
UniProt
Find proteins for Q47RK4 (Thermobifida fusca (strain YX)) Explore Q47RK4  Go to UniProtKB:  Q47RK4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free:  0.215 (Depositor), 0.215 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.180 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.47	α = 90
b = 71.07	β = 90
c = 158.648	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-11-02 
Deposition Author(s): Liu, L.X., Zhou, S.H., Deng, Y.

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Funding Organization	Location	Grant Number
Not funded	China	--

Revision History  

• Version 1.0: 2022-11-02
  Type: Initial release
  
• Version 1.1: 2023-07-26
  Changes: Database references
• Version 1.2: 2023-11-29
  Changes: Data collection, Refinement description