7ZE9

Structure of an AA16 LPMO-like protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.178 

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Literature

AA16 Oxidoreductases Boost Cellulose-Active AA9 Lytic Polysaccharide Monooxygenases from Myceliophthora thermophila.

Sun, P.Huang, Z.Banerjee, S.Kadowaki, M.A.S.Veersma, R.J.Magri, S.Hilgers, R.Muderspach, S.J.Laurent, C.V.F.P.Ludwig, R.Cannella, D.Lo Leggio, L.van Berkel, W.J.H.Kabel, M.A.

(2023) ACS Catal 13: 4454-4467

  • DOI: https://doi.org/10.1021/acscatal.3c00874
  • Primary Citation of Related Structures:  
    7ZE9

  • PubMed Abstract: 

    Copper-dependent lytic polysaccharide monooxygenases (LPMOs) classified in Auxiliary Activity (AA) families are considered indispensable as synergistic partners for cellulolytic enzymes to saccharify recalcitrant lignocellulosic plant biomass. In this study, we characterized two fungal oxidoreductases from the new AA16 family. We found that Mt AA16A from Myceliophthora thermophila and An AA16A from Aspergillus nidulans did not catalyze the oxidative cleavage of oligo- and polysaccharides. Indeed, the Mt AA16A crystal structure showed a fairly LPMO-typical histidine brace active site, but the cellulose-acting LPMO-typical flat aromatic surface parallel to the histidine brace region was lacking. Further, we showed that both AA16 proteins are able to oxidize low-molecular-weight reductants to produce H 2 O 2 . The oxidase activity of the AA16s substantially boosted cellulose degradation by four AA9 LPMOs from M. thermophila ( Mt LPMO9s) but not by three AA9 LPMOs from Neurospora crassa ( Nc LPMO9s). The interplay with Mt LPMO9s is explained by the H 2 O 2 -producing capability of the AA16s, which, in the presence of cellulose, allows the Mt LPMO9s to optimally drive their peroxygenase activity. Replacement of Mt AA16A by glucose oxidase ( An GOX) with the same H 2 O 2 -producing activity could only achieve less than 50% of the boosting effect achieved by Mt AA16A, and earlier Mt LPMO9B inactivation (6 h) was observed. To explain these results, we hypothesized that the delivery of AA16-produced H 2 O 2 to the Mt LPMO9s is facilitated by protein-protein interaction. Our findings provide new insights into the functions of copper-dependent enzymes and contribute to a further understanding of the interplay of oxidative enzymes within fungal systems to degrade lignocellulose.


  • Organizational Affiliation

    Laboratory of Food Chemistry, Wageningen University & Research, Bornse Weilanden 9, 6708 WG Wageningen, The Netherlands.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chitin-binding type-4 domain-containing proteinA [auth AAA],
B [auth BBB],
C [auth CCC]
188Thermothelomyces thermophilusMutation(s): 0 
Gene Names: MYCTH_2306267
UniProt
Find proteins for G2QH80 (Thermothelomyces thermophilus (strain ATCC 42464 / BCRC 31852 / DSM 1799))
Explore G2QH80 
Go to UniProtKB:  G2QH80
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG2QH80
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseD [auth AaA],
E [auth BaB]
7N-Glycosylation
Glycosylation Resources
GlyTouCan:  G07617FP
GlyCosmos:  G07617FP
GlyGen:  G07617FP
Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseF [auth CaC]5N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42769XG
GlyCosmos:  G42769XG
GlyGen:  G42769XG
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
G [auth AAA],
I [auth BBB],
K [auth CCC]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
CU
Query on CU

Download Ideal Coordinates CCD File 
H [auth AAA],
J [auth BBB],
L [auth CCC]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
ACT
Query on ACT

Download Ideal Coordinates CCD File 
M [auth CCC]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
HIC
Query on HIC
A [auth AAA],
B [auth BBB],
C [auth CCC]
L-PEPTIDE LINKINGC7 H11 N3 O2HIS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.178 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 152.424α = 90
b = 52.154β = 105.666
c = 88.855γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Novo Nordisk FoundationDenmarkNNF17SA0027704
Danish Council for Independent ResearchDenmark8021-00273B

Revision History  (Full details and data files)

  • Version 1.0: 2023-03-15
    Type: Initial release
  • Version 1.1: 2023-04-26
    Changes: Database references