X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.3
Temperature 292.0
Details 1.4 M sodium citrate pH 6.3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.47 α = 90
b = 74.47 β = 90
c = 67.11 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2012-07-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.918410 BESSY 14.1

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
1.51 37.23 99.7 0.04 -- -- 4.069 -- 33163 -- -3.0 30.38
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)
1.51 1.6 99.4 0.695 -- 2.18 3.998 --

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 1.51 37.23 -- 0.0 -- 32068 1095 99.71 -- 0.1838 0.1829 0.2107 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 1.51 1.549 -- 80 2345 0.267 0.277 0.0 98.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.189
Anisotropic B[1][1] -0.81
Anisotropic B[1][2] -0.81
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.81
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.63
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.004
r_bond_other_d 0.001
r_angle_refined_deg 1.933
r_dihedral_angle_3_deg 14.0
r_dihedral_angle_2_deg 40.85
r_bond_refined_d 0.019
r_dihedral_angle_4_deg 5.784
r_gen_planes_refined 0.015
r_angle_other_deg 0.793
r_chiral_restr 0.115
r_dihedral_angle_1_deg 5.793
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1163
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 150

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0029
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.20
XDS data reduction
PHASER phasing