1XW3

Crystal Structure of Human Sulfiredoxin (Srx)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.5293MPD, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.50
Crystal Properties
Matthews coefficientSolvent content
2.956.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.057α = 90
b = 68.057β = 90
c = 51.302γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU SATURN 92CONFOCAL BLUE MAX-FLUX2004-03-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007

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
11.6538.798.90.03927.17.2216690
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)
1.651.7192.30.243.92.88

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTSEMET MODEL1.6538.69168771583984598.890.215840.213720.25817RANDOM21.318
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]
0.050.030.05-0.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.876
r_dihedral_angle_4_deg20.871
r_dihedral_angle_3_deg14.328
r_dihedral_angle_1_deg5.69
r_scangle_it3.785
r_scbond_it2.66
r_mcangle_it1.713
r_angle_refined_deg1.566
r_mcbond_it1.087
r_nbtor_refined0.308
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.876
r_dihedral_angle_4_deg20.871
r_dihedral_angle_3_deg14.328
r_dihedral_angle_1_deg5.69
r_scangle_it3.785
r_scbond_it2.66
r_mcangle_it1.713
r_angle_refined_deg1.566
r_mcbond_it1.087
r_nbtor_refined0.308
r_symmetry_vdw_refined0.22
r_nbd_refined0.217
r_symmetry_hbond_refined0.212
r_xyhbond_nbd_refined0.12
r_chiral_restr0.099
r_bond_refined_d0.019
r_gen_planes_refined0.007
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 Atoms868
Nucleic Acid Atoms
Solvent Atoms112
Heterogen Atoms5

Software

Software
Software NamePurpose
REFMACrefinement
d*TREKdata reduction
CNSrefinement
CNSphasing
d*TREKdata scaling