8TDE

Structure of glucose bound Bacteroides thetaiotaomicron 3-Keto-2-hydroxy-glucal-hydratase BT2

• PDB DOI: https://doi.org/10.2210/pdb8TDE/pdb

• Classification: ISOMERASE
• Organism(s): Bacteroides thetaiotaomicron
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-02 Released: 2024-06-12 
• Deposition Author(s): Lazarski, A.C., Worrall, L.J., Strynadka, N.C.J.
• Funding Organization(s): Canadian Institutes of Health Research (CIHR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.230 
• R-Value Work: 0.192 

Literature

An alternative broad-specificity pathway for glycan breakdown in bacteria

Nasseri, S.A., Lazarski, A.C., Lemmer, I.L., Zhang, C.Y., Brencher, E., Chen, H., Sim, L., Panwar, D., Betschart, L., Worrall, L.J., Brumer, H., Strynadka, N.C.J., Withers, S.G.

(2024) Nature 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 63.18 kDa 
• Atom Count: 4,476 
• Modelled Residue Count: 512 
• Deposited Residue Count: 562 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable secreted glycosyl hydrolase	A, B	281	Bacteroides thetaiotaomicron	Mutation(s): 0  Gene Names: BT_2157
UniProt
Find proteins for Q8A5T1 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q8A5T1  Go to UniProtKB:  Q8A5T1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLC (Subject of Investigation/LOI)	C [auth A]	alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N
K	D [auth A], E [auth B]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.230 
• R-Value Work: 0.192 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.037	α = 90
b = 81.171	β = 90
c = 103.78	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-12 
Deposition Author(s): Lazarski, A.C., Worrall, L.J., Strynadka, N.C.J.

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Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	--

Revision History  

• Version 1.0: 2024-06-12
  Type: Initial release