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 = 121.83 α = 90
b = 121.83 β = 90
c = 109.36 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 -- 2000-12-07
Diffraction Radiation
Monochromator Protocol
Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 1.0 Photon Factory BL-6A

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
1.45 26.08 99.9 0.063 0.063 -- 8.7 72458 72435 0.0 0.0 --
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)
1.45 1.53 99.9 0.373 0.373 2.0 3.7 --

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 1.45 87.71 -- 0.0 -- 68780 3654 99.84 -- 0.1634 0.163 0.17102 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 1.45 1.488 -- 253 4978 0.272 0.29 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 11.595
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.221
r_dihedral_angle_1_deg 4.961
r_symmetry_hbond_refined 0.654
r_dihedral_angle_3_deg 17.335
r_symmetry_vdw_refined 0.313
r_gen_planes_other 0.002
r_mcangle_it 1.125
r_xyhbond_nbd_refined 0.151
r_nbd_other 0.198
r_angle_refined_deg 1.4
r_angle_other_deg 2.135
r_chiral_restr 0.08
r_bond_refined_d 0.009
r_mcbond_it 0.597
r_sphericity_free 1.461
r_bond_other_d 0.001
r_symmetry_vdw_other 0.23
r_scbond_it 1.696
r_gen_planes_refined 0.006
r_nbtor_other 0.221
r_scangle_it 2.733
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2229
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 292

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
AMoRE phasing
REFMAC refinement version: 5.0
CCP4 data scaling version: (SCALA)