X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details PEG, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 131.43 α = 90
b = 131.43 β = 90
c = 39.81 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate MIRROR 2009-07-21
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 -- -- --

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
2.65 19.76 99.3 0.1 -- -- -- 7364 7364 0.0 0.0 0.535
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)
2.65 2.74 98.9 0.586 -- 2.0 -- --

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 2.65 19.61 -- -- 7364 7364 343 99.06 0.17 0.167 0.16546 0.19926 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 2.65 2.719 -- 23 497 0.277 0.301 -- 98.67
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.865
Anisotropic B[1][1] -2.51
Anisotropic B[1][2] -1.25
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.76
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.022
r_chiral_restr 0.106
r_dihedral_angle_4_deg 19.48
r_dihedral_angle_3_deg 16.583
r_dihedral_angle_2_deg 36.309
r_dihedral_angle_1_deg 1.993
r_angle_refined_deg 1.556
r_bond_refined_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1911
Nucleic Acid Atoms 0
Heterogen Atoms 40
Solvent Atoms 111

Software

Computing
Computing Package Purpose
AUTOMAR Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMoRE Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
AMoRE model building