8RRY

Crystal structure of copper-loaded SmAA10


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.162 

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Literature

Integrated Experimental and Theoretical Investigation of Copper Active Site Properties of a Lytic Polysaccharide Monooxygenase from Serratia marcescens.

Munzone, A.Pujol, M.Tamhankar, A.Joseph, C.Mazurenko, I.Reglier, M.Jannuzzi, S.A.V.Royant, A.Sicoli, G.DeBeer, S.Orio, M.Simaan, A.J.Decroos, C.

(2024) Inorg Chem 63: 11063-11078

  • DOI: https://doi.org/10.1021/acs.inorgchem.4c00602
  • Primary Citation of Related Structures:  
    8RRY

  • PubMed Abstract: 

    In this paper, we employed a multidisciplinary approach, combining experimental techniques and density functional theory (DFT) calculations to elucidate key features of the copper coordination environment of the bacterial lytic polysaccharide monooxygenase (LPMO) from Serratia marcescens ( Sm AA10). The structure of the holo -enzyme was successfully obtained by X-ray crystallography. We then determined the copper(II) binding affinity using competing ligands and observed that the affinity of the histidine brace ligands for copper is significantly higher than previously described. UV-vis, advanced electron paramagnetic resonance (EPR), and X-ray absorption spectroscopy (XAS) techniques, including high-energy resolution fluorescence detected (HERFD) XAS, were further used to gain insight into the copper environment in both the Cu(II) and Cu(I) redox states. The experimental data were successfully rationalized by DFT models, offering valuable information on the electronic structure and coordination geometry of the copper center. Finally, the Cu(II)/Cu(I) redox potential was determined using two different methods at ca . 350 mV vs NHE and rationalized by DFT calculations. This integrated approach not only advances our knowledge of the active site properties of Sm AA10 but also establishes a robust framework for future studies of similar enzymatic systems.


  • Organizational Affiliation

    Aix Marseille Univ, CNRS, Centrale Méditerranée, iSm2, Marseille 13013, France.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CBP21
A, B
170Serratia marcescensMutation(s): 0 
Gene Names: cbpgbpAAB868_00786BVG97_15155FOT62_12335HMI62_18715JBO39_14050NCTC10211_02621
UniProt
Find proteins for O83009 (Serratia marcescens)
Explore O83009 
Go to UniProtKB:  O83009
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO83009
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.162 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.646α = 90
b = 106.738β = 99.955
c = 55.459γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-18-CE07-0003

Revision History  (Full details and data files)

  • Version 1.0: 2024-06-12
    Type: Initial release
  • Version 1.1: 2024-06-26
    Changes: Database references