X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.44
Temperature 298.0
Details 0.2M Imidazole-Malate, 42% MPEG 5K, pH 5.44, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 86.98 α = 90
b = 86.98 β = 90
c = 31.82 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 2011-07-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 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
1.97 25.68 98.6 0.088 -- -- 4.8 9951 9814 2.0 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)
1.97 2.04 98.4 0.312 -- 3.6 4.8 956

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 1.97 20.0 -- -- 9800 9333 467 98.58 -- 0.21406 0.21315 0.23243 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 1.97 2.021 956 41 661 0.272 0.334 -- 97.77
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.245
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 1.292
r_scangle_it 3.39
r_dihedral_angle_1_deg 5.545
r_dihedral_angle_2_deg 39.328
r_dihedral_angle_4_deg 23.904
r_angle_refined_deg 1.275
r_gen_planes_refined 0.006
r_mcbond_it 0.688
r_bond_refined_d 0.014
r_chiral_restr 0.083
r_scbond_it 2.11
r_dihedral_angle_3_deg 16.399
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 984
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 71

Software

Software
Software Name Purpose
CrystalClear data collection
MOLREP phasing
REFMAC refinement version: 5.5
CrystalClear data reduction
CrystalClear data scaling