2GQW

Crystal structure of Ferredoxin reductase, BphA4 (oxidized form)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.32932M Sodium formate, 0.1M Sodium acetate, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.7655.39

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 98.409α = 90
b = 98.409β = 90
c = 170.582γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102004-12-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE AR-NW12A1.000Photon FactoryAR-NW12A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.41599.90.0722.81413423571342357
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.41.471000.665.814

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONDifference FourierTHROUGHOUT1.4159118491184481499.990.178820.178820.177930.196RANDOM18.972
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]
-0.29-0.15-0.290.44
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.185
r_dihedral_angle_4_deg16.385
r_dihedral_angle_3_deg11.33
r_dihedral_angle_1_deg5.329
r_scangle_it2.871
r_scbond_it1.893
r_angle_refined_deg1.352
r_mcangle_it1.173
r_mcbond_it0.766
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.185
r_dihedral_angle_4_deg16.385
r_dihedral_angle_3_deg11.33
r_dihedral_angle_1_deg5.329
r_scangle_it2.871
r_scbond_it1.893
r_angle_refined_deg1.352
r_mcangle_it1.173
r_mcbond_it0.766
r_nbtor_refined0.306
r_symmetry_hbond_refined0.226
r_nbd_refined0.197
r_symmetry_vdw_refined0.187
r_xyhbond_nbd_refined0.099
r_chiral_restr0.085
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2971
Nucleic Acid Atoms
Solvent Atoms440
Heterogen Atoms74

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
XDSdata scaling
XTALVIEWrefinement