8QRZ | pdb_00008qrz

Microbacterium testaceum C-glucosyl deglycosidase (CGD), wild type

• PDB DOI: https://doi.org/10.2210/pdb8QRZ/pdb

• Classification: LYASE
• Organism(s): Microbacterium testaceum
• Expression System: Escherichia coli B
• Mutation(s): No 


• Deposited: 2023-10-09 Released: 2025-04-23 
• Deposition Author(s): Furlanetto, V., Kalyani, D.C., Divne, C.
• Funding Organization(s): Other government, Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.290 (Depositor), 0.285 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.236 (DCC) 
• R-Value Observed: 
  0.237 (Depositor) 

Starting Model: in silico

Literature

Microbacterium testaceum C-glucosyl deglycosidase (CGD), wild type

Furlanetto, V., Kalyani, D.C., Srivastava, V., Hallberg, B.M., Ezcurra, I., Divne, C.

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

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)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 195.41 kDa 
• Atom Count: 14,165 
• Modeled Residue Count: 1,740 
• Deposited Residue Count: 1,740 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sugar phosphate isomerase	A, B, C, D	435	Microbacterium testaceum	Mutation(s): 0  Gene Names: NS220_14145
UniProt
Find proteins for A0A147EV52 (Microbacterium testaceum) Explore A0A147EV52  Go to UniProtKB:  A0A147EV52

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RB (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	RUBIDIUM ION Rb NCCSSGKUIKYAJD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.290 (Depositor), 0.285 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.236 (DCC) 
• R-Value Observed: 0.237 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.22	α = 90.17
b = 80.41	β = 94.39
c = 82.96	γ = 106.58

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-23 
Deposition Author(s): Furlanetto, V., Kalyani, D.C., Divne, C.

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Funding Organization	Location	Grant Number
Other government	Sweden	Formas 2017-00983
Other private	Sweden	Oscar and Lili Lamm Memorial Foundation DO2017-0020
Other government	Sweden	VR 2017-03877

Revision History  

• Version 1.0: 2025-04-23
  Type: Initial release