X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.6
Temperature 298.0
Details 0.1 M sodium acetate pH 4.6, 0.2 M ammonium acetate, 30% PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.6 α = 90
b = 38.41 β = 125.27
c = 75.01 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1

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
1.46 25.08 99.7 0.048 -- -- 4.1 -- 28224 -- -- --
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)
1.46 1.53 98.5 0.342 -- 3.5 3.1 --

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 1.46 25.08 -- -- -- 26767 1427 99.9 -- 0.16138 0.15964 0.19218 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 1.46 1.498 -- 95 1845 0.383 0.392 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.558
Anisotropic B[1][1] 0.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.52
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.2
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_other 1.031
r_bond_refined_d 0.022
r_symmetry_hbond_refined 0.12
r_xyhbond_nbd_refined 0.124
r_gen_planes_refined 0.009
r_dihedral_angle_1_deg 4.947
r_dihedral_angle_4_deg 13.671
r_bond_other_d 0.001
r_angle_other_deg 1.413
r_mcangle_it 3.139
r_scbond_it 4.349
r_mcbond_it 2.119
r_symmetry_vdw_other 0.324
r_sphericity_bonded 5.567
r_dihedral_angle_2_deg 25.784
r_dihedral_angle_3_deg 14.246
r_gen_planes_other 0.002
r_rigid_bond_restr 2.157
r_chiral_restr 0.113
r_scangle_it 6.264
r_symmetry_vdw_refined 0.168
r_angle_refined_deg 1.851
r_sphericity_free 11.068
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1305
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 200

Software

Software
Software Name Purpose
Blu-Ice data collection
EPMR phasing
REFMAC refinement version: 5.1.24
MOSFLM data reduction
SCALA data scaling