X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details 0.1 M Bis-Tris, 2% v/v Tacsimate, 18% PEG 3350, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.59 α = 90
b = 99.19 β = 89.92
c = 81.8 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r Double-crystal, Si(111) liquid N2 cooled 2011-05-23
Diffraction Radiation
Monochromator Protocol
Double-crystal, Si(111) liquid N2 cooled SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 1.0000 ALS 5.0.2

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
2.5 81.8 -- 0.131 0.131 -- 2.5 -- 20261 1.0 1.0 17.0
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)
2.501 2.566 100.0 0.362 0.362 2.2 2.5 988

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 2.5 81.8 1.0 1.0 -- 18981 1017 98.7 0.21073 0.21073 0.20867 0.24987 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 2.501 2.566 988 66 1396 0.27 0.336 -- 96.69
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.0
Anisotropic B[1][1] 0.12
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.36
Anisotropic B[2][2] -1.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.17
RMS Deviations
Key Refinement Restraint Deviation
r_rigid_bond_restr 0.561
r_scangle_it 1.541
r_scbond_it 0.845
r_mcangle_it 1.153
r_mcbond_it 0.632
r_gen_planes_refined 0.001
r_chiral_restr 0.028
r_dihedral_angle_4_deg 9.247
r_dihedral_angle_3_deg 9.955
r_dihedral_angle_2_deg 28.227
r_dihedral_angle_1_deg 2.748
r_angle_refined_deg 0.448
r_bond_refined_d 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3772
Nucleic Acid Atoms 504
Heterogen Atoms 0
Solvent Atoms 156

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0102 refinement
PHASER model building
ADSC version: Quantum data collection