X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4
Temperature 298.0
Details ammonium sulfate, sodium acetate, pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 132.85 α = 90
b = 132.85 β = 90
c = 140.28 γ = 120
Symmetry
Space Group P 63 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-02-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.00 ELETTRA 5.2R

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
2.59 20 99.7 -- -- -- -- 23210 23141 -- -- --
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)
2.59 2.64 98.9 -- -- -- -- --

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 2.6 20.0 -- 0.0 -- 21788 1156 99.73 0.19521 0.19521 0.19291 0.23862 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 2.6 2.666 -- 73 1547 0.239 0.343 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.444
Anisotropic B[1][1] 1.06
Anisotropic B[1][2] 0.53
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.06
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.58
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.132
r_scbond_it 3.001
r_mcangle_it 2.003
r_mcbond_it 1.067
r_symmetry_hbond_refined 0.102
r_symmetry_vdw_other 0.351
r_symmetry_vdw_refined 0.185
r_bond_refined_d 0.025
r_bond_other_d 0.003
r_angle_refined_deg 2.452
r_angle_other_deg 1.103
r_dihedral_angle_1_deg 7.643
r_chiral_restr 0.137
r_gen_planes_refined 0.009
r_gen_planes_other 0.009
r_nbd_refined 0.22
r_nbd_other 0.247
r_nbtor_other 0.103
r_xyhbond_nbd_refined 0.178
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3499
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 93

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement