8XXD | pdb_00008xxd

TtCS-citrate-CoA complex

• PDB DOI: https://doi.org/10.2210/pdb8XXD/pdb

• Classification: TRANSFERASE
• Organism(s): Thermosulfidibacter takaii ABI70S6
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-01-18 Released: 2025-01-22 
• Deposition Author(s): Yang, L., Fang, Y.J.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free: 
  0.243 (Depositor), 0.244 (DCC) 
• R-Value Work: 
  0.188 (Depositor), 0.194 (DCC) 
• R-Value Observed: 
  0.191 (Depositor) 

Starting Model: in silico

Literature

TtCS-citrate-CoA complex

Yang, L., Fang, Y.J.

To be published.

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 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: 155.29 kDa 
• Atom Count: 11,035 
• Modeled Residue Count: 1,339 
• Deposited Residue Count: 1,347 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Citrate synthase	A, B, C	449	Thermosulfidibacter takaii ABI70S6	Mutation(s): 0  Gene Names: gltA EC: 2.3.3.16
UniProt
Find proteins for A0A0S3QTD0 (Thermosulfidibacter takaii (strain DSM 17441 / JCM 13301 / NBRC 103674 / ABI70S6)) Explore A0A0S3QTD0  Go to UniProtKB:  A0A0S3QTD0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA (Subject of Investigation/LOI)	D [auth A], G [auth C]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N
CIT (Subject of Investigation/LOI)	H [auth C]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N
OAA (Subject of Investigation/LOI)	E [auth A], F [auth B]	OXALOACETATE ION C4 H3 O5 KHPXUQMNIQBQEV-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.32 Å
• R-Value Free:  0.243 (Depositor), 0.244 (DCC) 
• R-Value Work:  0.188 (Depositor), 0.194 (DCC) 
• R-Value Observed: 0.191 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.56	α = 90
b = 109.56	β = 90
c = 265.2	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-22 
Deposition Author(s): Yang, L., Fang, Y.J.

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

Revision History  

• Version 1.0: 2025-01-22
  Type: Initial release