8AMP

Crystal structure of M.tuberculosis ferredoxin Fdx


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.254 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into 3Fe-4S ferredoxins diversity in M. tuberculosis highlighted by a first redox complex with P450.

Gilep, A.Varaksa, T.Bukhdruker, S.Kavaleuski, A.Ryzhykau, Y.Smolskaya, S.Sushko, T.Tsumoto, K.Grabovec, I.Kapranov, I.Okhrimenko, I.Marin, E.Shevtsov, M.Mishin, A.Kovalev, K.Kuklin, A.Gordeliy, V.Kaluzhskiy, L.Gnedenko, O.Yablokov, E.Ivanov, A.Borshchevskiy, V.Strushkevich, N.

(2022) Front Mol Biosci 9: 1100032-1100032

  • DOI: https://doi.org/10.3389/fmolb.2022.1100032
  • Primary Citation of Related Structures:  
    8AMO, 8AMP, 8AMQ

  • PubMed Abstract: 

    Ferredoxins are small iron-sulfur proteins and key players in essential metabolic pathways. Among all types, 3Fe-4S ferredoxins are less studied mostly due to anaerobic requirements. Their complexes with cytochrome P450 redox partners have not been structurally characterized. In the present work, we solved the structures of both 3Fe-4S ferredoxins from M. tuberculosis -Fdx alone and the fusion FdxE-CYP143. Our SPR analysis demonstrated a high-affinity binding of FdxE to CYP143. According to SAXS data, the same complex is present in solution. The structure reveals extended multipoint interactions and the shape/charge complementarity of redox partners. Furthermore, FdxE binding induced conformational changes in CYP143 as evident from the solved CYP143 structure alone. The comparison of FdxE-CYP143 and modeled Fdx-CYP51 complexes further revealed the specificity of ferredoxins. Our results illuminate the diversity of electron transfer complexes for the production of different secondary metabolites.


  • Organizational Affiliation

    Institute of Bioorganic Chemistry, National Academy of Sciences of Belarus, Minsk, Belarus.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Possible ferredoxin74Mycobacterium tuberculosisMutation(s): 0 
Gene Names: Rv0763c
UniProt
Find proteins for P71820 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P71820 
Go to UniProtKB:  P71820
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP71820
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.250 
  • R-Value Observed: 0.254 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.959α = 90
b = 46.959β = 90
c = 162.674γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
STARANISOdata scaling
MoRDaphasing
PHENIXmodel building
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Higher Education of the Russian FederationRussian Federation075-15-2021-1354
Ministry of Science and Higher Education of the Russian FederationRussian Federation122030100168-2

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-15
    Type: Initial release
  • Version 1.1: 2024-02-07
    Changes: Data collection, Refinement description