X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.2
Temperature 293.0
Details ammonium sulfate, phosphate buffer, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.98 α = 90
b = 34.13 β = 109.5
c = 72.27 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR RIGAKU MIRRORS 1997-06-30
Diffraction Radiation
Monochromator Protocol
Ni FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
1.5 25 98.6 0.063 -- -- 3.5 30643 30643 0.0 0.0 24.4
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)
1.5 1.55 90.2 0.272 -- 2.65 -- 1894

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 1.507 25.0 0.0 0.0 -- 29668 975 98.14 0.15 0.15009 0.14933 0.1723 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 1.507 1.546 1894 69 1894 0.247 0.329 -- 90.2
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 22.179
Anisotropic B[1][1] -0.55
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.44
Anisotropic B[2][2] 0.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.64
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 4.639
r_nbtor_other 0.134
r_nbd_other 0.257
r_nbd_refined 0.299
r_gen_planes_other 0.005
r_gen_planes_refined 0.007
r_chiral_restr 0.099
r_dihedral_angle_1_deg 6.464
r_angle_other_deg 1.745
r_angle_refined_deg 1.54
r_bond_other_d 0.002
r_bond_refined_d 0.014
r_xyhbond_nbd_refined 0.203
r_symmetry_vdw_refined 0.19
r_symmetry_vdw_other 0.259
r_symmetry_hbond_refined 0.153
r_mcbond_it 1.613
r_mcangle_it 2.653
r_scbond_it 3.507
r_scangle_it 5.178
r_rigid_bond_restr 1.58
r_sphericity_free 10.982
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1508
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 171

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement