7XBE

co-crystal structure of CcpE-RD with citrate

• PDB DOI: https://doi.org/10.2210/pdb7XBE/pdb

• Classification: TRANSCRIPTION
• Organism(s): Staphylococcus aureus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-03-21 Released: 2023-03-29 
• Deposition Author(s): Lan, L.F., Chen, F.F., Gan, J.H.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 0.223 
• R-Value Work: 0.189 
• R-Value Observed: 0.190 

Literature

co-crystal structure of CcpE-RD with citrate

Lan, L.F., Chen, F.F., Gan, J.H.

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 Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 33.52 kDa 
• Atom Count: 1,709 
• Modelled Residue Count: 197 
• Deposited Residue Count: 288 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LysR family transcriptional regulator	A	288	Staphylococcus aureus	Mutation(s): 0  Gene Names: M013TW_0659

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FLC (Subject of Investigation/LOI)	B [auth A]	CITRATE ANION C6 H5 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-K
NA (Subject of Investigation/LOI)	C [auth A], D [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 0.223 
• R-Value Work: 0.189 
• R-Value Observed: 0.190 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.935	α = 90
b = 38.799	β = 118.01
c = 54.504	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-3000	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-29 
Deposition Author(s): Lan, L.F., Chen, F.F., Gan, J.H.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31670136
National Natural Science Foundation of China (NSFC)	China	31700124
National Natural Science Foundation of China (NSFC)	China	81861138047

Revision History  

• Version 1.0: 2023-03-29
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description