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_scangle_it 0.373
r_scbond_it 0.272
r_mcangle_it 0.189
r_mcbond_it 0.164
r_nbd_refined 0.158
r_gen_planes_other 0.001
r_gen_planes_refined 0.002
r_chiral_restr 0.317
r_dihedral_angle_4_deg 8.774
r_dihedral_angle_3_deg 17.823
r_dihedral_angle_2_deg 37.341
r_dihedral_angle_1_deg 5.35
r_angle_other_deg 1.034
r_angle_refined_deg 0.97
r_bond_other_d 0.004
r_bond_refined_d 0.006
r_nbd_other 0.176
r_nbtor_refined 0.181
r_nbtor_other 0.086
r_xyhbond_nbd_refined 0.106
r_symmetry_vdw_refined 0.147
r_symmetry_vdw_other 0.092
r_symmetry_hbond_refined 0.066
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.3.0040 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.3.0040 refinement
AMORE model building