X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 0.1 M MES, PH 6.5, 25% PEG 4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.15 α = 90
b = 58.31 β = 93.72
c = 68.56 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 RIGAKU SATURN 944 VARIMAX HF 2012-04-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 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
1.64 30 87.2 0.034 -- -- 3.5 -- 45789 -- -3.0 16.9
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)
1.64 1.68 31.1 0.046 -- 10.0 1.1 --

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 1.64 15.0 -- 0.0 -- 44593 1128 84.7 -- 0.16568 0.16462 0.20793 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 1.64 1.682 -- 36 1222 0.176 0.245 -- 31.1
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.1
Anisotropic B[1][1] 0.23
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.17
Anisotropic B[2][2] -0.19
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.07
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.008
r_mcbond_it 2.133
r_dihedral_angle_2_deg 32.246
r_angle_refined_deg 1.167
r_dihedral_angle_3_deg 11.189
r_chiral_restr 0.076
r_scangle_it 23.808
r_gen_planes_refined 0.0
r_dihedral_angle_4_deg 19.468
r_scbond_it 21.801
r_dihedral_angle_1_deg 6.424
r_mcangle_it 3.754
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3315
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 546

Software

Software
Software Name Purpose
XDS data reduction
XDS data scaling
REFMAC refinement version: 5.5.0109
PHASER phasing