X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details HANGING DROPS 20MM TRIS-HCL PH7-8.5, 15-30% POLYETHYLENE GLYCOL 4000, pH 7.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.31 α = 90
b = 122.31 β = 90
c = 82.62 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC MIRRORS --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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
2.15 15 100.0 0.09 -- -- 8.9 -- 38032 -- -- --
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)
2.15 2.23 99.9 0.35 -- 7.0 8.7 --

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 2.15 105.41 -- -- -- 35580 1867 98.1 -- 0.194 0.192 0.226 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 2.15 2.21 -- 143 2638 0.2 0.251 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.97
Anisotropic B[1][1] 1.33
Anisotropic B[1][2] 0.66
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.99
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.605
r_scbond_it 2.602
r_mcangle_it 1.498
r_mcbond_other 0.238
r_mcbond_it 1.221
r_nbd_refined 0.211
r_gen_planes_other 0.001
r_gen_planes_refined 0.007
r_chiral_restr 0.102
r_dihedral_angle_4_deg 18.553
r_dihedral_angle_3_deg 15.918
r_dihedral_angle_2_deg 33.75
r_dihedral_angle_1_deg 6.639
r_angle_other_deg 0.88
r_angle_refined_deg 1.792
r_bond_other_d 0.001
r_bond_refined_d 0.019
r_nbd_other 0.198
r_nbtor_other 0.09
r_xyhbond_nbd_refined 0.172
r_symmetry_vdw_refined 0.113
r_symmetry_vdw_other 0.314
r_symmetry_hbond_refined 0.243
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3084
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 330

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.9999 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.9999 refinement
AMORE model building