X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 296.0
Details 26% PEG 3350, 0.1M HEPES, 0.2M Sodium chloride, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.11 α = 90
b = 124.13 β = 90
c = 245.33 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-02-01
Diffraction Radiation
Monochromator Protocol
Rotated-inclined double-crystal monochromator, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPRING-8 BL41XU

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
3.4 70.99 99.8 0.138 -- -- 7.2 52024 52024 0.0 0.0 73.428
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)
3.4 3.58 100.0 0.407 -- 4.6 7.4 7506

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 3.4 70.99 -- 0.0 49208 49208 2651 99.6 0.19997 0.19997 0.19787 0.23914 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 3.4 3.488 3792 207 3585 0.273 0.289 -- 99.87
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 92.677
Anisotropic B[1][1] -2.89
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.48
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.37
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.046
r_scbond_it 0.608
r_mcangle_it 0.398
r_mcbond_it 0.205
r_gen_planes_refined 0.004
r_chiral_restr 0.067
r_dihedral_angle_4_deg 14.722
r_dihedral_angle_3_deg 17.148
r_dihedral_angle_2_deg 37.838
r_dihedral_angle_1_deg 5.176
r_angle_refined_deg 1.032
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 24131
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 71

Software

Computing
Computing Package Purpose
BSS Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MolRep Structure Solution
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0109 refinement
MolRep model building
BSS data collection