9GXB

Room temperature structure of FAD-containing ferrodoxin-NADP reductase from Brucella ovis at EuXFEL


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.224 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

New insights into the function and molecular mechanisms of Ferredoxin-NADP + reductase from Brucella ovis.

Moreno, A.Quereda-Moraleda, I.Lozano-Vallhonrat, C.Bunuel-Escudero, M.Botha, S.Kupitz, C.Lisova, S.Sierra, R.Mariani, V.Schleissner, P.Gee, L.B.Dorner, K.Schmidt, C.Han, H.Kloos, M.Smyth, P.Valerio, J.Schulz, J.de Wijn, R.Melo, D.V.M.Round, A.Trost, F.Sobolev, E.Juncheng, E.Sikorski, M.Bean, R.Martinez-Julvez, M.Martin-Garcia, J.M.Medina, M.

(2024) Arch Biochem Biophys 762: 110204-110204

  • DOI: https://doi.org/10.1016/j.abb.2024.110204
  • Primary Citation of Related Structures:  
    9GXB, 9GXC

  • PubMed Abstract: 

    Bacterial ferredoxin(flavodoxin)-NADP + reductases (FPR) primarily catalyze the transfer of reducing equivalents from NADPH to ferredoxin (or flavodoxin) to provide low potential reducing equivalents for the oxidoreductive metabolism. In addition, they can be implicated in regulating reactive oxygen species levels. Here we assess the functionality of FPR from B. ovis to understand its potential roles in the bacteria physiology. We prove that this FPR is active with the endogenous [2Fe-2S] Fdx ferredoxin, exhibiting a K M Fdx in the low micromolar range. At the molecular level, this study provides with the first structures of an FPR at room temperature obtained by serial femtosecond crystallography, envisaging increase in flexibility at both the adenine nucleotide moiety of FAD and the C-terminal tail. The produced microcrystals are in addition suitable for future mix-and-inject time-resolved studies with the NADP + /H coenzyme either at synchrotrons or XFELs. Furthermore, the study also predicts the ability of FPR to simultaneously interact with Fdx and NADP + /H.


  • Organizational Affiliation

    Departamento de Bioquímica y Biología Molecular y Celular, Facultad de Ciencias, Universidad de Zaragoza, 50009 Zaragoza, Spain; Instituto de Biocomputación y Física de Sistemas Complejos (BIFI), and GBsC (Unizar) join Unit to CSIC, Universidad de Zaragoza, 50018 Zaragoza, Spain; Departamento de Biología, Facultad de Ciencias, Universidad de los Andes, Venezuela.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ferredoxin--NADP(+) reductase263Brucella ovis ATCC 25840Mutation(s): 0 
Gene Names: fprBOV_0348
EC: 1.18.1.2
UniProt
Find proteins for A0A0H3ASL8 (Brucella ovis (strain ATCC 25840 / 63/290 / NCTC 10512))
Explore A0A0H3ASL8 
Go to UniProtKB:  A0A0H3ASL8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H3ASL8
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FAD (Subject of Investigation/LOI)
Query on FAD

Download Ideal Coordinates CCD File 
B [auth A]FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.224 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.9α = 90
b = 39.9β = 90
c = 168.5γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Economy and Competitiveness (MINECO)SpainPID2022-136369NB-I00
Other governmentLMP13_21
Other governmentBiologia Estructural_E35_23R
Comunidad de MadridSpain2019-T1/BMD-15552
Agencia Estatal de Investigacion (AEI)SpainCNS2022/135713

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-27
    Type: Initial release
  • Version 1.1: 2024-12-25
    Changes: Refinement description