X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.7
Details 5MG/ML 0.1 M MES/NAOH PH 5.7,, 4.5% W/V PEG 3350, 25 MM SODIUM NITRATE, 10% V/V GLYCEROL, 10 DEGREES CELSIUS

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.73 α = 90
b = 100.73 β = 90
c = 60.3 γ = 90
Symmetry
Space Group I 4

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- 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 71.23 98.0 0.04 -- -- 3.6 -- 13277 -- 1.0 --
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)
2.3 2.36 98.6 0.37 -- 3.9 3.8 --

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 2.31 71.23 -- -- -- 12395 680 97.9 -- 0.21033 0.20668 0.27734 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 2.311 2.371 -- 60 884 0.292 0.428 -- 98.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.949
Anisotropic B[1][1] 2.42
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.83
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 6.243
r_scangle_it 0.063
r_angle_refined_deg 1.354
r_mcangle_it 0.057
r_nbd_refined 0.211
r_xyhbond_nbd_refined 0.152
r_gen_planes_other 0.001
r_mcbond_it 0.037
r_nbtor_refined 0.18
r_chiral_restr 0.079
r_symmetry_hbond_refined 0.059
r_bond_other_d 0.001
r_mcbond_other 0.013
r_bond_refined_d 0.011
r_nbtor_other 0.09
r_symmetry_vdw_refined 0.13
r_xyhbond_nbd_other 0.025
r_scbond_it 0.047
r_angle_other_deg 0.948
r_symmetry_vdw_other 0.249
r_dihedral_angle_3_deg 18.916
r_dihedral_angle_4_deg 17.102
r_dihedral_angle_2_deg 34.838
r_gen_planes_refined 0.004
r_nbd_other 0.201
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2048
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 86

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019G
MOSFLM data reduction
SCALA data scaling