4FIW | pdb_00004fiw

X-ray crystal structure of Corynebacterium glutamicum Nrdh-redoxin at 1.5A


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1R74PDB ENTRIES 1R74, 1H75, 3IC4 and 1ABA
experimental modelPDB 1H75PDB ENTRIES 1R74, 1H75, 3IC4 and 1ABA
experimental modelPDB 3IC4PDB ENTRIES 1R74, 1H75, 3IC4 and 1ABA
experimental modelPDB 1ABAPDB ENTRIES 1R74, 1H75, 3IC4 and 1ABA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5293.1512% glycerol, 0.1M Tris pH 8.5, 1.8M ammonium sulphate, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K
Crystal Properties
Matthews coefficientSolvent content
2.5251.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 61.77α = 90
b = 61.77β = 90
c = 77.19γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2010-03-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.9793ESRFID29

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.528.67598.3144722
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.5394.9

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTPDB ENTRIES 1R74, 1H75, 3IC4 and 1ABA1.501128.6752.011424214472144799.980.19310.19080.190.21340.21Random
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-1.0664-1.06642.1328
RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d11.288
f_angle_d1.06
f_chiral_restr0.068
f_bond_d0.008
f_plane_restr0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms582
Nucleic Acid Atoms
Solvent Atoms66
Heterogen Atoms17

Software

Software
Software NamePurpose
ADSCdata collection
BALBESphasing
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling