X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 292.0
Details 20% (w/v) PEG 4000, 0.2M MgCl2, 0.1M Tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 172.27 α = 90
b = 172.27 β = 90
c = 69.61 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-05-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 0.9786 SLS X10SA

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
2.2 29.91 99.9 -- 0.061 -- 5.6 60055 60023 -- -- 40.6
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)
2.2 2.3 99.9 -- 0.387 4.5 5.5 --

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 2.2 29.91 -- -- 60055 57015 2988 99.96 -- 0.18039 0.17871 0.21229 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 2.2 2.257 -- 211 4206 0.233 0.274 -- 99.91
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.553
Anisotropic B[1][1] 1.23
Anisotropic B[1][2] 0.62
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.85
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 18.288
r_angle_refined_deg 1.439
r_gen_planes_refined 0.006
r_nbd_refined 0.239
r_symmetry_vdw_refined 0.269
r_xyhbond_nbd_refined 0.219
r_mcbond_it 0.729
r_mcbond_other 0.0
r_bond_other_d 0.0
r_dihedral_angle_3_deg 17.061
r_nbtor_refined 0.186
r_symmetry_hbond_refined 0.317
r_bond_refined_d 0.014
r_gen_planes_other 0.008
r_dihedral_angle_2_deg 37.171
r_scangle_it 3.087
r_angle_other_deg 4.126
r_nbd_other 0.242
r_nbtor_other 0.11
r_symmetry_vdw_other 0.278
r_scbond_it 1.996
r_chiral_restr 0.085
r_dihedral_angle_1_deg 6.895
r_mcangle_it 1.352
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5834
Nucleic Acid Atoms 0
Heterogen Atoms 83
Solvent Atoms 405

Software

Software
Software Name Purpose
MOSFLM data reduction
PHASES phasing
REFMAC refinement version: 5.2.0019
XDS data reduction
XSCALE data scaling