1XT6

S35C Flavodoxin Mutant in the semiquinone state

• PDB DOI: https://doi.org/10.2210/pdb1XT6/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Nitratidesulfovibrio vulgaris str. Hildenborough
• Expression System: Nitratidesulfovibrio vulgaris
• Mutation(s): Yes 


• Deposited: 2004-10-21 Released: 2004-12-21 
• Deposition Author(s): Artali, R., Marchini, N., Meneghetti, F., Cavazzini, D., Cassetta, A., Sassone, C., Bombieri, G., Rossi, G.L., Gilardi, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.261 
• R-Value Work: 0.192 
• R-Value Observed: 0.192 

Literature

Structure of S35C flavodoxin mutant from Desulfovibrio vulgaris in the semiquinone state.

Artali, R., Marchini, N., Meneghetti, F., Cavazzini, D., Cassetta, A., Sassone, C.

(2005) Acta Crystallogr D Biol Crystallogr 61: 481-484

• PubMed: 15805604 
• DOI: https://doi.org/10.1107/S0907444905001502
• Primary Citation of Related Structures:  
  1XT6


• PubMed Abstract: 
  

  The crystallographic structure of an engineered flavodoxin mutant from Desulfovibrio vulgaris has been analysed. Site-directed mutagenesis was used to substitute serine 35 with a cysteine to provide a possible covalent linkage. The crystal structure of the semiquinone form of this mutant is similar to the corresponding oxidation state of the wild-type flavodoxin. Analysis of the structural changes reveals the interaction between N(5)H of the flavin and the carbonyl O atom of Gly61 to be critical for modulation of the electrochemical properties of the protein.

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Organizational Affiliation: 

Institute of Pharmaceutical Chemistry, University of Milano, Italy. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 16.15 kDa 
• Atom Count: 1,261 
• Modelled Residue Count: 147 
• Deposited Residue Count: 147 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Flavodoxin	A	147	Nitratidesulfovibrio vulgaris str. Hildenborough	Mutation(s): 1
UniProt
Find proteins for P00323 (Desulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / NCIMB 8303 / VKM B-1760 / Hildenborough)) Explore P00323  Go to UniProtKB:  P00323

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	B [auth A]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.261 
• R-Value Work: 0.192 
• R-Value Observed: 0.192 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.08	α = 90
b = 51.08	β = 90
c = 138.42	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
CCP4	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-21 
Deposition Author(s): Artali, R., Marchini, N., Meneghetti, F., Cavazzini, D., Cassetta, A., Sassone, C., Bombieri, G., Rossi, G.L., Gilardi, G.

Revision History  

• Version 1.0: 2004-12-21
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.4: 2024-02-14
  Changes: Data collection