X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 30% PEG MME 550, 0.1 M CaCl2, 0.1 M Bis-Tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.93 α = 90
b = 124.41 β = 114.8
c = 67.89 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 MARMOSAIC 225 mm CCD mirrors 2011-03-06
Diffraction Radiation
Monochromator Protocol
KMC-1 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 -- 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
2.36 34.4 99.5 0.082 -- -- 3.8 35358 35189 0.0 -3.0 42.8
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)
2.36 2.46 99.7 0.636 -- 2.74 3.8 4096

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 2.36 33.34 -- 0.0 35358 34081 1106 99.78 -- 0.17578 0.17312 0.2592 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 2.36 2.421 -- 83 2502 0.288 0.423 -- 99.85
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 40.639
Anisotropic B[1][1] -2.74
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.92
Anisotropic B[2][2] 3.92
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.53
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.015
r_dihedral_angle_2_deg 36.818
r_gen_planes_refined 0.007
r_dihedral_angle_3_deg 17.873
r_dihedral_angle_1_deg 7.212
r_chiral_restr 0.122
r_angle_refined_deg 1.715
r_dihedral_angle_4_deg 21.055
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7792
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 220

Software

Software
Software Name Purpose
XDS data scaling
PHASER phasing
REFMAC refinement version: 5.7.0032
XDS data reduction