X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.15
Details 30% PEG 3350, 0.3M Ammonium sulfate, 0.1M Bis-Tris, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.06 α = 90
b = 98.93 β = 110.63
c = 61.98 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 ADSC QUANTUM 315 Kirkpatrick Baez bimorph mirror pair 2010-10-06
Diffraction Radiation
Monochromator Protocol
Si (111) double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03

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
2.27 49.47 96.6 0.09 -- -- 3.2 30233 30186 0.0 0.0 43.2
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)
2.27 2.39 96.6 0.604 -- 2.1 3.2 4455

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 2.27 49.47 2.0 0.0 30186 28661 1524 96.09 -- 0.21861 0.21624 0.26201 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 2.27 2.329 -- 113 2150 0.272 0.343 -- 96.18
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.207
Anisotropic B[1][1] -0.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.81
Anisotropic B[2][2] 0.54
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.67
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 33.703
r_mcangle_it 4.514
r_angle_refined_deg 1.567
r_dihedral_angle_1_deg 5.499
r_dihedral_angle_4_deg 16.486
r_mcbond_it 2.76
r_scangle_it 8.946
r_gen_planes_refined 0.008
r_gen_planes_other 0.004
r_scbond_it 7.11
r_bond_refined_d 0.015
r_chiral_restr 0.079
r_mcbond_other 0.74
r_bond_other_d 0.005
r_angle_other_deg 1.198
r_dihedral_angle_3_deg 15.268
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.319
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5104
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 220

Software

Software
Software Name Purpose
GDA data collection
PHASER phasing
REFMAC refinement version: 5.5.0110
XDS data reduction
SCALA data scaling