X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details pH 5.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.03 α = 90
b = 81.03 β = 90
c = 33.9 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MICRO FOCUS --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA -- SLS X06SA

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 24.1 98.8 0.07 -- -- 3.3 -- 13231 -- 0.0 --
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)
2.2 2.3 98.7 0.21 -- 5.7 3.2 --

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 40.52 -- -- -- 3958 209 98.8 -- 0.242 0.24 0.282 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 2.26 -- 15 300 0.316 0.37 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.75
Anisotropic B[1][1] 0.08
Anisotropic B[1][2] 0.04
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.13
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.158
r_mcbond_it 0.164
r_nbtor_refined 0.181
r_dihedral_angle_4_deg 8.774
r_symmetry_vdw_other 0.092
r_mcangle_it 0.189
r_dihedral_angle_2_deg 37.341
r_gen_planes_other 0.001
r_gen_planes_refined 0.002
r_nbtor_other 0.086
r_symmetry_vdw_refined 0.147
r_symmetry_hbond_refined 0.066
r_chiral_restr 0.317
r_scangle_it 0.373
r_angle_other_deg 1.034
r_xyhbond_nbd_refined 0.106
r_dihedral_angle_1_deg 5.35
r_bond_refined_d 0.006
r_scbond_it 0.272
r_bond_other_d 0.004
r_angle_refined_deg 0.97
r_dihedral_angle_3_deg 17.823
r_nbd_other 0.176
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 766
Nucleic Acid Atoms 0
Heterogen Atoms 15
Solvent Atoms 66

Software

Software
Software Name Purpose
REFMAC refinement version: 5.3.0040
XDS data reduction
XSCALE data scaling
AMoRE phasing