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_sphericity_bonded 6.543
r_sphericity_free 8.016
r_rigid_bond_restr 3.587
r_scangle_it 8.236
r_scbond_it 5.924
r_mcangle_it 5.673
r_mcbond_other 5.019
r_mcbond_it 4.408
r_nbd_refined 0.224
r_gen_planes_other 0.016
r_gen_planes_refined 0.009
r_chiral_restr 0.108
r_dihedral_angle_4_deg 10.16
r_dihedral_angle_3_deg 17.485
r_dihedral_angle_2_deg 40.447
r_dihedral_angle_1_deg 4.26
r_angle_other_deg 3.787
r_angle_refined_deg 1.624
r_bond_other_d 0.0
r_bond_refined_d 0.016
r_nbd_other 0.202
r_nbtor_refined 0.18
r_nbtor_other 0.094
r_xyhbond_nbd_refined 0.156
r_symmetry_vdw_refined 0.241
r_symmetry_vdw_other 0.336
r_symmetry_hbond_refined 0.144
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

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
MOLREP model building