X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 8% PEG 3350, 0.1M HEPES PH 7.5, 0.05M AMMONIUM ACETATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.54 α = 90
b = 71.82 β = 90
c = 71.77 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU SATURN 92 CONFOCAL MIRRORS (VARIMAX) 2005-12-15
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 -- -- --

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
2.15 50.77 99.7 0.1 -- -- 3.33 -- 15575 -- 3.0 31.0
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)
2.15 2.23 99.9 0.39 -- 2.1 3.3 --

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 2.15 42.93 -- -- -- 15562 779 99.693 -- 0.244 0.2416 0.3001 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 9.394 42.93 -- 11 212 0.234 0.123 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.933
Anisotropic B[1][1] -0.073
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.66
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.587
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.473
r_bond_refined_d 0.012
r_gen_planes_refined 0.006
r_scangle_it 2.119
r_symmetry_vdw_refined 0.118
r_angle_other_deg 0.914
r_nbd_refined 0.214
r_nbtor_refined 0.179
r_angle_refined_deg 1.427
r_gen_planes_other 0.001
r_xyhbond_nbd_refined 0.19
r_dihedral_angle_4_deg 22.593
r_symmetry_vdw_other 0.176
r_dihedral_angle_3_deg 16.179
r_nbtor_other 0.088
r_symmetry_hbond_refined 0.235
r_dihedral_angle_2_deg 39.297
r_chiral_restr 0.077
r_mcbond_it 0.605
r_bond_other_d 0.004
r_nbd_other 0.181
r_scbond_it 1.332
r_mcangle_it 1.089
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2209
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 150

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
CrystalClear data reduction
CrystalClear data scaling
AMoRE phasing