X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 287.0
Details 20% PEG3350, 0.2M ammonium acetate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 287K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.9 α = 90
b = 67.28 β = 97.04
c = 85.56 γ = 90
Symmetry
Space Group P 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD -- -- 2011-01-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 1.000 SSRF BL17U

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
2.4 84.92 99.8 -- 0.147 -- 7.3 34563 34563 -- -- --
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)
2.4 2.53 100.0 0.41 0.41 1.7 7.4 5026

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 2.4 45.0 -- 0.0 -- 34563 1738 99.81 -- 0.194 0.1918 0.2344 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 2.4 2.462 -- 129 2415 0.202 0.288 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.9579
Anisotropic B[1][1] -1.18
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.82
Anisotropic B[2][2] 1.94
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.97
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.35
r_scbond_it 1.322
r_mcangle_it 0.754
r_mcbond_it 0.375
r_gen_planes_refined 0.005
r_chiral_restr 0.073
r_dihedral_angle_4_deg 17.585
r_dihedral_angle_3_deg 16.944
r_dihedral_angle_2_deg 37.198
r_dihedral_angle_1_deg 5.475
r_angle_refined_deg 1.119
r_bond_refined_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5438
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 269

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0102 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
REFMAC5 version: 5.5.0102 refinement
Phaser molecular replacement
SCALA version: 3.3.15 data reduction
Mosflm data collection