X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details PEG 4000, sodium citrate and ammonium acetate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 32.74 α = 103.16
b = 42.02 β = 93.88
c = 80.73 γ = 91.32
Symmetry
Space Group P 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2003-07-06
CCD MARRESEARCH mirrors 2003-06-06
Diffraction Radiation
Monochromator Protocol
Si monchromator and cylindrical grazing incidence mirror SINGLE WAVELENGTH
Si monchromator and toroidal focusing mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.9792 ESRF ID29
SYNCHROTRON ELETTRA BEAMLINE 5.2R 0.998 ELETTRA 5.2R

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
2.2 20 95.2 -- 0.05 -- 2.2 21172 20156 0.0 0.0 31.2
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)
2.2 2.26 92.0 -- 0.146 3.6 2.2 --

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
SAD 2.2 20.0 0.0 0.0 20156 19093 1041 95.2 0.203 0.198 0.198 0.288 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 2.2 2.257 1266 78 -- 0.227 0.352 -- 92.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 31.2
Anisotropic B[1][1] -0.4
Anisotropic B[1][2] 0.22
Anisotropic B[1][3] 0.45
Anisotropic B[2][2] -0.88
Anisotropic B[2][3] -1.86
Anisotropic B[3][3] 1.22
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.62
r_angle_other_deg 0.9
r_angle_refined_deg 1.72
r_bond_other_d 0.002
r_bond_refined_d 0.017
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3395
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 227

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1 refinement
SOLVE model building
SCALA data reduction
MOSFLM data collection