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 -- --
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_scangle_it 3.971
r_scbond_it 2.406
r_mcangle_it 1.658
r_mcbond_other 0.185
r_mcbond_it 0.883
r_gen_planes_other 0.001
r_gen_planes_refined 0.008
r_chiral_restr 0.087
r_dihedral_angle_4_deg 22.375
r_dihedral_angle_3_deg 15.878
r_dihedral_angle_2_deg 30.46
r_dihedral_angle_1_deg 6.919
r_angle_other_deg 0.862
r_angle_refined_deg 1.541
r_bond_other_d 0.001
r_bond_refined_d 0.015
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

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.5.0072 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0072 refinement
PHASER model building