X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 2.4 M (NH4)2HPO4, 100 MM TRIS PH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.44 α = 90
b = 56.44 β = 90
c = 56.44 γ = 90
Symmetry
Space Group I 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA -- SLS X10SA

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
1.12 18 99.3 0.04 -- -- 4.74 -- 11605 -- 0.0 14.7
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)
1.12 1.19 99.1 0.66 -- 2.2 4.63 --

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 1.12 17.85 -- -- -- 11024 581 100.0 -- 0.15069 0.14832 0.19718 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 1.12 1.149 -- 43 807 0.239 0.255 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.593
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 17.485
r_nbtor_other 0.094
r_gen_planes_refined 0.009
r_bond_other_d 0.0
r_symmetry_hbond_refined 0.144
r_mcbond_it 4.408
r_chiral_restr 0.108
r_mcangle_it 5.673
r_symmetry_vdw_refined 0.241
r_dihedral_angle_1_deg 4.26
r_angle_other_deg 3.787
r_dihedral_angle_2_deg 40.447
r_nbd_other 0.202
r_sphericity_free 8.016
r_dihedral_angle_4_deg 10.16
r_angle_refined_deg 1.624
r_sphericity_bonded 6.543
r_mcbond_other 5.019
r_scangle_it 8.236
r_bond_refined_d 0.016
r_nbd_refined 0.224
r_symmetry_vdw_other 0.336
r_rigid_bond_restr 3.587
r_gen_planes_other 0.016
r_xyhbond_nbd_refined 0.156
r_scbond_it 5.924
r_nbtor_refined 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 254
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 64

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
XDS data reduction
XSCALE data scaling
MOLREP phasing