X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 98.44 α = 90
b = 98.44 β = 90
c = 80.84 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MIRRORS 2005-09-03
Diffraction Radiation
Monochromator Protocol
SI111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- SLS X10SA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.9 36.5 97.2 0.08 -- -- 3.5 -- 34063 -- 2.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.9 2.0 92.0 0.59 -- 2.39 2.6 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.9 85.13 -- -- -- 32279 1709 97.1 -- 0.187 0.185 0.219 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.9 1.95 -- 106 2132 0.345 0.347 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.7
Anisotropic B[1][1] 0.72
Anisotropic B[1][2] 0.36
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.72
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.09
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.147
r_scbond_it 2.653
r_mcangle_it 1.952
r_mcbond_it 1.253
r_nbd_refined 0.207
r_gen_planes_other 0.001
r_gen_planes_refined 0.007
r_chiral_restr 0.103
r_dihedral_angle_4_deg 15.599
r_dihedral_angle_3_deg 13.219
r_dihedral_angle_2_deg 33.093
r_dihedral_angle_1_deg 9.915
r_angle_other_deg 0.895
r_angle_refined_deg 1.599
r_bond_other_d 0.001
r_bond_refined_d 0.018
r_nbd_other 0.182
r_nbtor_refined 0.186
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.293
r_symmetry_vdw_refined 0.061
r_symmetry_vdw_other 0.292
r_symmetry_hbond_refined 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2209
Nucleic Acid Atoms 0
Heterogen Atoms 23
Solvent Atoms 157

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
PHASER model building