5F12

WrbA in complex with FMN under crystallization conditions of WrbA-FMN-BQ structure (4YQE)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.179 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Quantum Calculations Indicate Effective Electron Transfer between FMN and Benzoquinone in a New Crystal Structure of Escherichia coli WrbA.

Degtjarik, O.Brynda, J.Ettrichova, O.Kuty, M.Sinha, D.Kuta Smatanova, I.Carey, J.Ettrich, R.Reha, D.

(2016) J Phys Chem B 120: 4867-4877

  • DOI: 10.1021/acs.jpcb.5b11958
  • Primary Citation of Related Structures:  
    4YQE, 5F12

  • PubMed Abstract: 
  • Quantum mechanical calculations using the Marcus equation are applied to compare the electron-transfer probability for two distinct crystal structures of the Escherichia coli protein WrbA, an FMN-dependent


    Organizational Affiliation

    Faculty of Sciences, University of South Bohemia in Ceske Budejovice , Zamek 136, CZ-373 33 Nove Hrady, Czech Republic.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
NAD(P)H dehydrogenase (quinone)A, B197Escherichia coli K-12Mutation(s): 0 
Gene Names: wrbAb1004JW0989
EC: 1.6.5.2
UniProt
Find proteins for P0A8G6 (Escherichia coli (strain K12))
Explore P0A8G6 
Go to UniProtKB:  P0A8G6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A8G6
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FMN
Query on FMN

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
FLAVIN MONONUCLEOTIDE
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MHO
Query on MHO
A, B L-PEPTIDE LINKINGC5 H11 N O3 SMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.179 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.75α = 90
b = 60.75β = 90
c = 169.02γ = 90
Software Package:
Software NamePurpose
MxCuBEdata collection
XDSdata reduction
BALBESphasing
REFMACrefinement
Cootmodel building
PDB_EXTRACTdata extraction
XSCALEdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-25
    Type: Initial release
  • Version 1.1: 2016-06-01
    Changes: Database references
  • Version 1.2: 2016-06-08
    Changes: Database references
  • Version 1.3: 2016-06-22
    Changes: Database references