9I1U | pdb_00009i1u

Lytic polysaccharide monooxygenase from Cellvibrio japonicus - CjAA10B


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.276 (Depositor), 0.273 (DCC) 
  • R-Value Work: 
    0.230 (Depositor), 0.226 (DCC) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Electrochemical Insight into the Copper Redox Chemistry and H 2 O 2 and O 2 Reducing Capability of Two AA10 Lytic Polysaccharide Monooxygenases.

Reid, E.K.Miles, C.G.Lloyd-Laney, H.O.Nairn, A.K.Branch, J.Garland, N.Yates, N.D.J.Ascham, A.Walton, P.H.Hemsworth, G.Parkin, A.

(2026) ACS Electrochem 2: 239-257

  • DOI: https://doi.org/10.1021/acselectrochem.5c00266
  • Primary Citation Related Structures: 
    9I1U

  • PubMed Abstract: 

    Lytic polysaccharide monooxygenases ([L]-PMOs) are copper-containing enzymes that catalyse cleavage of the glycosidic bond, a process central to microbial biomass degradation. Here, we describe electrochemical methods used to investigate the Cu 2+/1+ redox chemistry and the polysaccharide-free catalytic activity of two AA10 LPMOs: Cj AA10B from Cellvibrio japonicus and Cf AA10 from Cellulomonas fimi . Immobilisation of these enzymes on the surface of a graphite electrode allows for direct electrochemical measurements of Cu 2+/1+ redox cycling as well as the ability of both LPMOs to reduce H 2 O 2 vs O 2 . These measurements can be advantageous when compared to biological dye assays as they provide direct kinetic measurements and allow for investigation over a wider range of environmental conditions. Values of k cat and K M - are reported for H 2 O 2 and O 2 reduction by Cj AA10B and Cf AA10 from pH 5-7, with Cf AA10 consistently outperforming Cj AA10B. Both enzymes perform faster catalysis with H 2 O 2 but when comparing the affinity-coupled specificity constant ( k cat / K M ), the LPMOs perform similarly with both H 2 O 2 and O 2 , suggesting both substrates are viable. We also note an increase in redox signals as pH is decreased that correlates with EPR data suggesting a second species is formed K a ∼ 4.6). The increase in signal size with decreasing pH that is seen for the non-catalytic Cu 2+/1+ transition is interpreted in light of an increasing proportion of electroactive species at low pH; such a change in activity with pH is notably not observed in the presence of substrate (H 2 O 2 or O 2 ). This suggests that substrate binding modulates the active site, disrupting the effect of protonation. These findings establish electrochemistry as a powerful tool for probing LPMO activity.


  • Organizational Affiliation
    • Department of Chemistry, University of York, Heslington, York YO10 5DD, U.K.

Macromolecule Content 

  • Total Structure Weight: 192.8 kDa 
  • Atom Count: 13,998 
  • Modeled Residue Count: 1,650 
  • Deposited Residue Count: 1,688 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Chitin binding protein, putative, cbp33/10B
A, B, C, D, E
A, B, C, D, E, F, G, H
211Cellvibrio japonicusMutation(s): 0 
Gene Names: 10Bcbp33CJA_3139
UniProt
Find proteins for B3PDT6 (Cellvibrio japonicus (strain Ueda107))
Explore B3PDT6 
Go to UniProtKB:  B3PDT6
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB3PDT6
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PO4

Query on PO4



Download:Ideal Coordinates CCD File
J [auth A]
L [auth B]
N [auth C]
P [auth D]
Q [auth D]
J [auth A],
L [auth B],
N [auth C],
P [auth D],
Q [auth D],
S [auth E],
U [auth F],
W [auth G],
Y [auth H]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
CU

Query on CU



Download:Ideal Coordinates CCD File
I [auth A]
K [auth B]
M [auth C]
O [auth D]
R [auth E]
I [auth A],
K [auth B],
M [auth C],
O [auth D],
R [auth E],
T [auth F],
V [auth G],
X [auth H]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.276 (Depositor), 0.273 (DCC) 
  • R-Value Work:  0.230 (Depositor), 0.226 (DCC) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.824α = 90
b = 74.922β = 102.095
c = 137.455γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PHASERphasing
XDSdata collection

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/N019970/1

Revision History  (Full details and data files)

  • Version 1.0: 2025-12-24
    Type: Initial release
  • Version 1.1: 2026-03-04
    Changes: Database references