X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.4
Temperature 277.0
Details 3.2-2.9M ammonium sulfate in 0.1 M Bis-Tris-propane, pH 6.4, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.72 α = 90
b = 90.72 β = 90
c = 45.4 γ = 120
Symmetry
Space Group P 6

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS VII -- 2009-12-16
Diffraction Radiation
Monochromator Protocol
CONFOCAL MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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
1.75 100 99.6 0.054 -- -- 8.2 -- 21608 -- -- --
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)
1.75 1.81 99.4 0.325 -- 3.8 5.4 --

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 1.75 19.65 -- -- -- 20500 1106 99.7 -- 0.20275 0.20118 0.23246 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 1.75 1.795 -- 93 1452 0.238 0.291 -- 99.23
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.328
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.952
r_nbd_refined 0.204
r_dihedral_angle_1_deg 4.535
r_bond_refined_d 0.013
r_gen_planes_refined 0.009
r_mcbond_it 0.887
r_dihedral_angle_2_deg 36.283
r_chiral_restr 0.084
r_symmetry_hbond_refined 0.104
r_scbond_it 2.506
r_angle_refined_deg 3.019
r_mcangle_it 1.425
r_nbtor_refined 0.301
r_symmetry_vdw_refined 0.188
r_dihedral_angle_4_deg 27.713
r_xyhbond_nbd_refined 0.121
r_dihedral_angle_3_deg 15.541
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1221
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 71

Software

Software
Software Name Purpose
DENZO data reduction
MOLREP phasing
REFMAC refinement version: 5.2.0019
SCALEPACK data scaling