X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5
Details 1.8M NAK PHOSPHATE, PH5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.85 α = 90
b = 106.66 β = 112.58
c = 81.16 γ = 90
Symmetry
Space Group I 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 -- Diamond I02

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
2.09 44.39 84.3 0.08 -- -- 87.0 -- 31054 -- 2.0 --
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)
2.09 2.2 87.0 0.47 -- 1.8 2.7 --

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 2.09 66.52 -- -- -- 29436 1573 84.01 -- 0.21151 0.20953 0.24882 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 2.086 2.14 -- 118 2239 0.317 0.324 -- 86.43
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.827
Anisotropic B[1][1] 1.35
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.34
Anisotropic B[2][2] -0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.17
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.015
r_mcbond_other 0.185
r_bond_other_d 0.001
r_gen_planes_refined 0.008
r_gen_planes_other 0.001
r_chiral_restr 0.087
r_dihedral_angle_4_deg 22.375
r_angle_refined_deg 1.541
r_dihedral_angle_3_deg 15.878
r_mcbond_it 0.883
r_mcangle_it 1.658
r_dihedral_angle_1_deg 6.919
r_scbond_it 2.406
r_dihedral_angle_2_deg 30.46
r_angle_other_deg 0.862
r_scangle_it 3.971
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3083
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 27

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0072
MOSFLM data reduction
SCALEPACK data scaling
PHASER phasing