X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 297.0
Details 20 mM di-ammonium hydrogen citrate, 20% PEG 3000, and 10 mM MgCl2, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.2 α = 90
b = 64.1 β = 120.69
c = 79.18 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2005-05-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.9176 CHESS F1

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
1.65 40 99.6 -- 0.062 -- 3.6 42961 42961 -- -3.0 --
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)
1.65 1.71 97.7 -- 0.213 -- -- 4204

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 1.65 40.0 -- 0.0 -- 40799 2161 99.57 -- 0.20378 0.2013 0.25061 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 1.65 1.693 -- 170 2925 0.25 0.282 -- 97.02
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.282
Anisotropic B[1][1] 0.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.23
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 4.055
r_sphericity_free 5.112
r_rigid_bond_restr 3.012
r_scangle_it 3.3
r_scbond_it 2.774
r_mcangle_it 2.045
r_mcbond_it 1.263
r_nbd_refined 0.196
r_gen_planes_refined 0.008
r_chiral_restr 0.095
r_dihedral_angle_4_deg 21.023
r_dihedral_angle_3_deg 15.159
r_dihedral_angle_2_deg 30.176
r_dihedral_angle_1_deg 5.668
r_angle_refined_deg 1.46
r_bond_refined_d 0.011
r_nbtor_refined 0.308
r_xyhbond_nbd_refined 0.145
r_symmetry_vdw_refined 0.36
r_symmetry_hbond_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1921
Nucleic Acid Atoms 979
Heterogen Atoms 0
Solvent Atoms 307

Software

Computing
Computing Package Purpose
SOFTWARE AT CHESS F1 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2 refinement
MOLREP model building
CHESS version: F1 data collection