X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 5.8
Temperature 277.0
Details 0.5 M KSCN, 0.1 M MES-HCL, pH 5.8, 10% DMSO, VAPOR DIFFUSION, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.52 α = 90
b = 85.91 β = 90
c = 46.44 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR scanner 345 mm plate Monochromator:Side scattering bent cube-root I-beam single crystal; asymmetric cut 4.965 degs; Mirrors: Rh coated flat mirror 2008-07-26
Diffraction Radiation
Monochromator Protocol
Monochromator:Side scattering bent cube-root I-beam single crystal; asymmetric cut 4.965 degs; SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1

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
1.8 31.53 95.2 0.064 0.064 -- 3.3 22686 21597 0.0 0.0 23.1
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)
1.8 1.85 75.4 0.183 0.183 3.8 2.1 3398

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 1.8 31.53 -- 0.0 -- 21566 1106 95.2 -- 0.208 0.206 0.246 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 1.8 1.847 1162 59 1162 0.239 0.314 -- 75.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 27.867
Anisotropic B[1][1] 2.82
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.75
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.06
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.36
r_scbond_it 1.932
r_mcangle_it 1.262
r_mcbond_it 0.669
r_gen_planes_refined 0.004
r_chiral_restr 0.082
r_dihedral_angle_4_deg 13.615
r_dihedral_angle_3_deg 11.346
r_dihedral_angle_2_deg 43.324
r_dihedral_angle_1_deg 5.336
r_angle_refined_deg 1.064
r_bond_refined_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1518
Nucleic Acid Atoms 0
Heterogen Atoms 92
Solvent Atoms 211

Software

Computing
Computing Package Purpose
Blu-ice Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
Molrep Structure Solution
REFMAC 5.5.0090 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.005 data extraction
REFMAC5 version: 5.5.0090 refinement