6HSW

A CE15 glucuronoyl esterase from Teredinibacter turnerae T7901

• PDB DOI:  https://doi.org/10.2210/pdb6HSW/pdb

• Classification: HYDROLASE
• Organism(s): Teredinibacter turnerae T7901
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-10-02 Released: 2019-03-20 
• Deposition Author(s): Mazurkewich, S., Lo Leggio, L., Navarro Poulsen, J.C., Larsbrink, J.
• Funding Organization(s): Knut and Alice Wallenberg Foundation, Novo Nordisk Foundation, European Union

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.212 
• R-Value Work: 0.164 
• R-Value Observed: 0.164 

Literature

Structure-function analyses reveal that a glucuronoyl esterase fromTeredinibacter turneraeinteracts with carbohydrates and aromatic compounds.

Arnling Baath, J., Mazurkewich, S., Poulsen, J.N., Olsson, L., Lo Leggio, L., Larsbrink, J.

(2019) J Biol Chem 294: 6635-6644

• PubMed: 30814248 
• DOI: https://doi.org/10.1074/jbc.RA119.007831
• Primary Citation of Related Structures:  
  6HSW


• PubMed Abstract: 
  

Glucuronoyl esterases (GEs) catalyze the cleavage of ester linkages found between lignin and glucuronic acid moieties on glucuronoxylan in plant biomass. As such, GEs represent promising biochemical tools in industrial processing of these recalcitrant resources. However, details on how GEs interact with their natural substrates are sparse, calling for thorough structure-function studies. Presented here is the structure and biochemical characterization of a GE, Tt CE15A, from the bacterium Teredinibacter turnerae , a symbiont of wood-boring shipworms. To gain deeper insight into enzyme-substrate interactions, inhibition studies were performed with both the WT Tt CE15A and variants in which we, by using site-directed mutagenesis, substituted residues suggested to have key roles in binding to or interacting with the aromatic and carbohydrate structures of its uronic acid ester substrates. Our results support the hypothesis that two aromatic residues (Phe-174 and Trp-376), conserved in bacterial GEs, interact with aromatic and carbohydrate structures of these substrates in the enzyme active site, respectively. The solved crystal structure of Tt CE15A revealed features previously not observed in either fungal or bacterial GEs, with a large inserted N-terminal region neighboring the active site and a differently positioned residue of the catalytic triad. The findings highlight key interactions between GEs and complex lignin-carbohydrate ester substrates and advance our understanding of the substrate specificities of these enzymes in biomass conversion.

---

Organizational Affiliation: 

From the Wallenberg Wood Science Center, Division of Industrial Biotechnology, Department of Biology and Biological Engineering, Chalmers University of Technology, SE-412 96 Gothenburg, Sweden and [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 147.42 kDa 
• Atom Count: 10,723 
• Modelled Residue Count: 1,262 
• Deposited Residue Count: 1,320 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbohydrate esterase family 15 domain protein	A, B, C	440	Teredinibacter turnerae T7901	Mutation(s): 0  Gene Names: TERTU_0517
UniProt
Find proteins for C5BN23 (Teredinibacter turnerae (strain ATCC 39867 / T7901)) Explore C5BN23  Go to UniProtKB:  C5BN23

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1PE	D [auth A], P [auth B]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
PEG	HA [auth C]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL	AA [auth B], BA [auth B], CA [auth B], DA [auth B], EA [auth B], FA [auth B], L [auth A], M [auth A], N [auth A], OA [auth C], X [auth B], Y [auth B], Z [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
BR	GA [auth C], O [auth B]	BROMIDE ION Br CPELXLSAUQHCOX-UHFFFAOYSA-M
EDO	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], IA [auth C], J [auth A], JA [auth C], K [auth A], KA [auth C], LA [auth C], MA [auth C], NA [auth C], Q [auth B], R [auth B], S [auth B], T [auth B], U [auth B], V [auth B], W [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.212 
• R-Value Work: 0.164 
• R-Value Observed: 0.164 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.173	α = 90
b = 121.173	β = 90
c = 198.203	γ = 120

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-03-20 
Deposition Author(s): Mazurkewich, S., Lo Leggio, L., Navarro Poulsen, J.C., Larsbrink, J.

---

Funding Organization	Location	Grant Number
Knut and Alice Wallenberg Foundation	Sweden	Wood Science Center
Novo Nordisk Foundation	Denmark	NNF17OC0027698
European Union	Denmark	Interreg-programmet for Oresund-Kattegat-Skagerrak

Revision History  

• Version 1.0: 2019-03-20
  Type: Initial release
  
• Version 1.1: 2019-05-29
  Changes: Data collection, Database references