X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch Under Oil
pH 4.6
Temperature 298.0
Details 2M Na formate, 0.1M Na acetate pH 4.6, microbatch under oil, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 136.5 α = 90
b = 51.49 β = 110.35
c = 107.75 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD BRUKER SMART 6000 -- --
IMAGE PLATE MAR scanner 345 mm plate -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE OTHER 1.5418 -- --
ROTATING ANODE OTHER 1.5418 -- --

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
1.85 101.02 99.1 0.0286 0.0297 -- -- -- 59898 -- -- --
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)
1.849 1.94 97.0 0.1313 0.1639 6.16 -- --

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
MIRAS 1.85 65.29 -- -- -- 56875 3023 99.17 -- 0.182 0.18 0.213 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 1.849 1.897 -- 216 4095 0.194 0.241 -- 96.81
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.13
Anisotropic B[1][1] 0.34
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.08
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.28
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 15.992
r_scbond_it 2.41
r_dihedral_angle_1_deg 5.588
r_chiral_restr 0.1
r_gen_planes_refined 0.007
r_dihedral_angle_2_deg 32.574
r_mcbond_it 0.741
r_angle_refined_deg 1.353
r_dihedral_angle_3_deg 12.495
r_bond_refined_d 0.013
r_scangle_it 3.86
r_mcangle_it 1.345
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4509
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 381

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0046
PDB_EXTRACT data extraction version: 3.006
PROTEUM PLUS data collection
XDS data reduction
PROTEUM data reduction
XSCALE data scaling
SADABS data scaling
SHARP phasing
RESOLVE phasing