8R72

Polysaccharide lyase BtPL33HA (BT4410) Y291A with HA dp4 collected at 1.33 A

• PDB DOI: https://doi.org/10.2210/pdb8R72/pdb

• Classification: LYASE
• Organism(s): Bacteroides thetaiotaomicron VPI-5482
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2023-11-23 Released: 2024-12-04 
• Deposition Author(s): Cartmell, A.
• Funding Organization(s): Royal Society, Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.58 Å
• R-Value Free: 0.281 
• R-Value Work: 0.219 

Starting Model: experimental

Literature

Polysaccharide lyase family 33 utilises an evolutionary conserved mechanism of conformationally induced catalysis to drive processivity

Cartmell, A., Couturier, M.

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: SAXS

Macromolecule Content

• Total Structure Weight: 148.82 kDa 
• Atom Count: 9,935 
• Modelled Residue Count: 1,222 
• Deposited Residue Count: 1,288 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heparinase	A, B	644	Bacteroides thetaiotaomicron VPI-5482	Mutation(s): 1  Gene Names: BT_4410
UniProt
Find proteins for Q89ZG7 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q89ZG7  Go to UniProtKB:  Q89ZG7

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-glucopyranuronic acid-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, D	4		N/A
Glycosylation Resources
GlyTouCan:  G48124SB GlyCosmos:  G48124SB GlyGen:  G48124SB

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	E [auth A], F [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.58 Å
• R-Value Free: 0.281 
• R-Value Work: 0.219 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.87	α = 90
b = 137.4	β = 90
c = 203.33	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-04 
Deposition Author(s): Cartmell, A.

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Funding Organization	Location	Grant Number
Royal Society	United Kingdom	212050
Wellcome Trust	United Kingdom	1065163470

Revision History  

• Version 1.0: 2024-12-04
  Type: Initial release