X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.9
Temperature 289.0
Details 2.2-2.7 M ammonium sulfate, 0.1 M Tris 7.5-7.9, vapor diffusion, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.77 α = 90
b = 200.86 β = 93.64
c = 97.93 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 315 3X3 CCD ARRAY 2010-01-15
Diffraction Radiation
Monochromator Protocol
DOUBLE-CRYSTAL, SI (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 -- 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
2.9 100.43 99.2 -- 0.08 -- 3.7 82634 82634 -- -- --
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)
2.9 3.06 99.2 0.422 0.422 1.7 3.8 --

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 2.9 29.99 -- -- -- 78420 4123 99.09 -- 0.28777 0.28654 0.31094 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 2.9 2.975 -- 300 5784 0.386 0.424 -- 99.22
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 93.533
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.01
Anisotropic B[2][2] 0.1
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.04
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.017
r_scbond_it 1.762
r_mcangle_it 1.35
r_mcbond_it 0.705
r_gen_planes_other 0.001
r_gen_planes_refined 0.003
r_chiral_restr 0.048
r_dihedral_angle_4_deg 11.052
r_dihedral_angle_3_deg 13.698
r_dihedral_angle_2_deg 31.295
r_dihedral_angle_1_deg 4.556
r_angle_other_deg 0.648
r_angle_refined_deg 0.797
r_bond_other_d 0.001
r_bond_refined_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 18171
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 39

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 refinement
SCALA version: 3.3.15 data reduction
Mosflm data collection