X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 9
Temperature 294.0
Details PEG MME 5000, Bicine

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 164.52 α = 90
b = 136.45 β = 132.04
c = 118.96 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2016-02-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.97625 ESRF ID23-1

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
2.3 100 97.6 0.081 -- -- 3.58 -- 86146 -- -- --
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)
2.3 2.38 85.1 1.044 -- 1.23 2.94 --

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 2.3 91.03 -- -- -- 80547 4250 98.44 -- 0.2239 0.22253 0.24911 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 2.303 2.363 -- 274 5236 0.353 0.382 -- 86.69
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.361
Anisotropic B[1][1] 1.56
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.03
Anisotropic B[2][2] -2.67
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.44
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.423
r_mcbond_it 1.749
r_chiral_restr 0.085
r_mcangle_it 2.902
r_bond_refined_d 0.01
r_gen_planes_refined 0.005
r_mcbond_other 1.749
r_dihedral_angle_4_deg 18.145
r_gen_planes_other 0.001
r_angle_other_deg 0.884
r_scangle_other 3.494
r_long_range_B_refined 5.264
r_bond_other_d 0.002
r_scbond_other 2.1
r_dihedral_angle_1_deg 6.612
r_dihedral_angle_3_deg 13.261
r_dihedral_angle_2_deg 35.53
r_long_range_B_other 5.263
r_scbond_it 2.1
r_mcangle_other 2.902
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10073
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 65

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0155
XDS data reduction
XSCALE data scaling
PHASER phasing