X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 295.0
Details lithium sulphate, ammonium sulphate, pH 5.0, VAPOR DIFFUSION, SITTING DROP at 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.37 α = 90
b = 79.2 β = 92.32
c = 148.86 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2001-11-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.915 ESRF ID29

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
1.7 50 90.0 -- 0.079 -- 3.3 193811 193811 -- -3.0 25.0
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)
1.7 1.8 56.7 -- 0.329 2.5 2.1 19129

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 1.7 20.0 -3.0 0.0 193695 193695 8981 90.07 0.20126 0.20126 0.19924 0.24296 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 1.7 1.744 7898 395 7503 0.231 0.266 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic, TLS parameterisation
Mean Isotropic B 13.47
Anisotropic B[1][1] 0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.72
Anisotropic B[2][2] -1.36
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.28
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.769
r_scbond_it 3.448
r_mcangle_it 3.161
r_mcbond_it 2.409
r_symmetry_hbond_refined 0.217
r_symmetry_vdw_other 0.279
r_symmetry_vdw_refined 0.284
r_bond_refined_d 0.019
r_bond_other_d 0.002
r_angle_refined_deg 1.675
r_angle_other_deg 0.931
r_dihedral_angle_1_deg 6.392
r_chiral_restr 0.113
r_gen_planes_refined 0.008
r_gen_planes_other 0.003
r_nbd_refined 0.223
r_nbd_other 0.25
r_nbtor_other 0.087
r_xyhbond_nbd_refined 0.236
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11328
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 1159

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
REFMAC 5.1.19 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.19 refinement
REFMAC model building
XDS data reduction
XDS data collection