X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch
pH 7.5
Temperature 285.0
Details Tris/HCl, hexylene glycol, Ammonium Sulfate, pH 7.5, Batch, temperature 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 121.65 α = 90
b = 121.65 β = 90
c = 109.15 γ = 90
Symmetry
Space Group I 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2000-10-08
Diffraction Radiation
Monochromator Protocol
Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-18B 1.0 PHOTON FACTORY BL-18B

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 38.35 99.8 0.092 0.092 -- 9.7 27858 27854 0.0 3.0 --
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)
2.0 2.11 99.6 0.254 -- -- 9.4 --

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 2.0 84.52 -- 0.0 -- 26445 1399 99.72 -- 0.16642 0.16594 0.17548 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 2.0 2.052 -- 96 1917 0.174 0.205 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.964
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.09
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.198
r_nbd_refined 0.205
r_gen_planes_other 0.002
r_gen_planes_refined 0.005
r_chiral_restr 0.081
r_dihedral_angle_3_deg 16.762
r_dihedral_angle_1_deg 4.52
r_angle_other_deg 1.077
r_angle_refined_deg 1.382
r_bond_other_d 0.001
r_bond_refined_d 0.01
r_xyhbond_nbd_refined 0.137
r_xyhbond_nbd_other 0.441
r_symmetry_vdw_refined 0.169
r_symmetry_vdw_other 0.18
r_symmetry_hbond_refined 0.701
r_mcbond_it 0.628
r_mcangle_it 1.16
r_scbond_it 1.714
r_scangle_it 2.879
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2224
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 219

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
AMoRE model building
SCALA data reduction
MOSFLM data collection