X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.5
Temperature 298.0
Details 0.1 M Sodium acetate trihydrate pH 4.5, 25% PEG 3,350, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 31.77 α = 90
b = 67.44 β = 90
c = 95.06 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2010-04-02
Diffraction Radiation
Monochromator Protocol
Diamond 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 31-ID 0.9793 APS 31-ID

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
1.25 19.43 97.8 -- -- -- -- 57297 56036 0.0 0.0 --
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)
1.25 1.32 95.8 -- -- -- -- --

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 1.25 19.03 -- -- 54545 53121 2855 97.39 0.12742 0.12742 0.12563 0.16083 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 1.25 1.282 -- 184 3559 0.181 0.215 -- 94.81
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.485
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.02
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 9.526
r_sphericity_free 26.256
r_rigid_bond_restr 7.164
r_gen_planes_other 0.008
r_gen_planes_refined 0.013
r_chiral_restr 0.139
r_dihedral_angle_4_deg 20.115
r_dihedral_angle_3_deg 13.145
r_dihedral_angle_2_deg 32.3
r_dihedral_angle_1_deg 7.394
r_angle_other_deg 1.386
r_angle_refined_deg 2.528
r_bond_other_d 0.002
r_bond_refined_d 0.029
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1719
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 230

Software

Computing
Computing Package Purpose
SPEC Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Phaser Structure Solution
REFMAC 5.6.0111 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0111 refinement
Phaser model building
SPEC data collection