1WSB | pdb_00001wsb

Flavodoxin mutant- S64C

• PDB DOI: https://doi.org/10.2210/pdb1WSB/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Nitratidesulfovibrio vulgaris
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-11-05 Released: 2004-11-23 
• Deposition Author(s): Artali, R., Bombieri, G., Marchini, N., Meneghetti, F., Rossi, G.L., Cavazzini, D., Gilardi, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.249 (Depositor), 0.261 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.174 (Depositor) 

Starting Model: experimental

Literature

Redox properties and crystal structures of a Desulfovibrio vulgaris flavodoxin mutant in the monomeric and homodimeric forms.

Fantuzzi, A., Artali, R., Bombieri, G., Marchini, N., Meneghetti, F., Gilardi, G., Sadeghi, S.J., Cavazzini, D., Rossi, G.L.

(2009) Biochim Biophys Acta 1794: 496-505

• PubMed: 19118653 
• DOI: https://doi.org/10.1016/j.bbapap.2008.11.026
• Primary Citation Related Structures: 
  1WSB, 1WSW, 1XYV, 1XYY


• PubMed Abstract: 
  

  The mutant S64C of the short-chain flavodoxin from Desulfovibrio vulgaris has been designed to introduce an accessible and reactive group on the protein surface. Crystals have been obtained of both the monomeric and homodimeric forms of the protein, with the cofactor FMN in either the oxidized or the one electron-reduced (semiquinone) state, and the structures have been determined to high resolution. The redox properties of the different species have been investigated and the variations observed with respect to wild type have been related to the structural changes induced by the mutation and S-S bridge formation.

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Organizational Affiliation: 
• Imperial College London, Division of Molecular Biosciences, South Kensington, SW72AZ, London, United Kingdom.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 16.28 kDa 
• Atom Count: 1,368 
• Modeled Residue Count: 147 
• Deposited Residue Count: 148 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FLAVODOXIN	A	148	Nitratidesulfovibrio vulgaris	Mutation(s): 1
UniProt
Find proteins for P00323 (Nitratidesulfovibrio vulgaris (strain ATCC 29579 / DSM 644 / CCUG 34227 / 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:  0.249 (Depositor), 0.261 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.174 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.8	α = 90
b = 50.8	β = 90
c = 138.61	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-11-23 
Deposition Author(s): Artali, R., Bombieri, G., Marchini, N., Meneghetti, F., Rossi, G.L., Cavazzini, D., Gilardi, G.

Revision History  

• Version 1.0: 2004-11-23
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-07-25
  Changes: Data collection, Refinement description, Source and taxonomy, Structure summary
• Version 1.4: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.5: 2023-10-25
  Changes: Data collection, Refinement description