X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details 20% PEG3000, 0.1 M HEPES, 0.2 M NaCl, 10 mM Spermine-4HCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.07 α = 74.12
b = 77.26 β = 87.25
c = 96.4 γ = 89.99
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 2010-04-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU 1.5418 -- --

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 46.3 89.0 0.07 -- -- 3.6 -- 88454 -- -- --
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)
2.0 2.07 80.2 0.29 -- 4.2 3.7 --

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 2.0 46.304 -- -- -- 84024 4418 88.97 -- 0.19987 0.19826 0.23068 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 2.0 2.052 -- 259 5307 0.281 0.307 -- 75.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.932
Anisotropic B[1][1] -0.35
Anisotropic B[1][2] -0.05
Anisotropic B[1][3] 0.16
Anisotropic B[2][2] 0.32
Anisotropic B[2][3] 0.07
Anisotropic B[3][3] -0.02
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.383
r_scbond_it 2.119
r_mcangle_it 1.374
r_mcbond_it 0.766
r_gen_planes_refined 0.006
r_chiral_restr 0.098
r_dihedral_angle_4_deg 18.257
r_dihedral_angle_3_deg 16.092
r_dihedral_angle_2_deg 36.996
r_dihedral_angle_1_deg 6.597
r_angle_refined_deg 1.465
r_bond_refined_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11380
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 759

Software

Computing
Computing Package Purpose
StructureStudio Data Collection
d*TREK Data Reduction (intensity integration)
d*TREK Data Reduction (data scaling)
Phaser Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
Phaser model building
StructureStudio data collection