6TWE

Cu(I) NMR solution structure of the chitin-active lytic polysaccharide monooxygenase BlLPMO10A


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

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This is version 1.3 of the entry. See complete history


Literature

Mechanistic basis of substrate-O2coupling within a chitin-active lytic polysaccharide monooxygenase: An integrated NMR/EPR study.

Courtade, G.Ciano, L.Paradisi, A.Lindley, P.J.Forsberg, Z.Sorlie, M.Wimmer, R.Davies, G.J.Eijsink, V.G.H.Walton, P.H.Aachmann, F.L.

(2020) Proc Natl Acad Sci U S A 117: 19178-19189

  • DOI: https://doi.org/10.1073/pnas.2004277117
  • Primary Citation of Related Structures:  
    6TWE

  • PubMed Abstract: 

    Lytic polysaccharide monooxygenases (LPMOs) have a unique ability to activate molecular oxygen for subsequent oxidative cleavage of glycosidic bonds. To provide insight into the mode of action of these industrially important enzymes, we have performed an integrated NMR/electron paramagnetic resonance (EPR) study into the detailed aspects of an AA10 LPMO-substrate interaction. Using NMR spectroscopy, we have elucidated the solution-phase structure of apo - Bl LPMO10A from Bacillus licheniformis , along with solution-phase structural characterization of the Cu(I)-LPMO, showing that the presence of the metal has minimal effects on the overall protein structure. We have, moreover, used paramagnetic relaxation enhancement (PRE) to characterize Cu(II)-LPMO by NMR spectroscopy. In addition, a multifrequency continuous-wave (CW)-EPR and 15 N-HYSCORE spectroscopy study on the uniformly isotope-labeled 63 Cu(II)-bound 15 N- Bl LPMO10A along with its natural abundance isotopologue determined copper spin-Hamiltonian parameters for LPMOs to markedly improved accuracy. The data demonstrate that large changes in the Cu(II) spin-Hamiltonian parameters are induced upon binding of the substrate. These changes arise from a rearrangement of the copper coordination sphere from a five-coordinate distorted square pyramid to one which is four-coordinate near-square planar. There is also a small reduction in metal-ligand covalency and an attendant increase in the d(x 2 -y 2 ) character/energy of the singly occupied molecular orbital (SOMO), which we propose from density functional theory (DFT) calculations predisposes the copper active site for the formation of a stable Cu-O 2 intermediate. This switch in orbital character upon addition of chitin provides a basis for understanding the coupling of substrate binding with O 2 activation in chitin-active AA10 LPMOs.


  • Organizational Affiliation

    Norwegian Biopolymer Laboratory (NOBIPOL), Department of Biotechnology and Food Science, Norwegian University of Science and Technology, N-7491 Trondheim, Norway.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative chitin binding protein172Bacillus licheniformis DSM 13 = ATCC 14580Mutation(s): 0 
Gene Names: chbBBL00145
UniProt
Find proteins for Q62YN7 (Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / CCUG 7422 / NBRC 12200 / NCIMB 9375 / NCTC 10341 / NRRL NRS-1264 / Gibson 46))
Explore Q62YN7 
Go to UniProtKB:  Q62YN7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ62YN7
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CU1
Query on CU1

Download Ideal Coordinates CCD File 
B [auth A]COPPER (I) ION
Cu
VMQMZMRVKUZKQL-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Norwegian Research CouncilNorway221576
Norwegian Research CouncilNorway226244
Other privateDenmarkObel Foundation
Other privateDenmarkSparNord Foundation
The Carlsberg FoundationDenmark--

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-29
    Type: Initial release
  • Version 1.1: 2020-08-12
    Changes: Database references
  • Version 1.2: 2020-08-26
    Changes: Database references
  • Version 1.3: 2023-06-14
    Changes: Database references, Other