X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 200 MM SODIUM CITRATE, 100 MM HEPES, 30 % MPD, PH 7.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.2 α = 90
b = 99.2 β = 90
c = 80.6 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 PT COATED MIRRORS IN A KIRKPATRICK-BAEZ (KB) GEOMETRY 2011-06-30
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-2 -- ESRF ID23-2

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
2.3 25 99.8 0.13 -- -- 6.4 -- 20098 -- -3.0 28.3
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)
2.3 2.4 100.0 0.52 -- 4.81 6.4 --

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 2.3 24.8 -- -- -- 19383 711 99.9 -- 0.17176 0.1706 0.20127 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 2.3 2.359 -- 42 1438 0.195 0.205 -- 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.991
Anisotropic B[1][1] 1.05
Anisotropic B[1][2] 0.53
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.58
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.077
r_dihedral_angle_3_deg 12.834
r_bond_refined_d 0.014
r_gen_planes_other 0.001
r_scangle_it 3.61
r_angle_other_deg 0.845
r_mcbond_it 0.79
r_mcangle_it 1.55
r_angle_refined_deg 1.442
r_dihedral_angle_4_deg 17.674
r_bond_other_d 0.001
r_mcbond_other 0.121
r_gen_planes_refined 0.006
r_dihedral_angle_1_deg 5.828
r_dihedral_angle_2_deg 34.199
r_scbond_it 2.117
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2200
Nucleic Acid Atoms 0
Heterogen Atoms 29
Solvent Atoms 138

Software

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