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 = 121.72 α = 90
b = 121.72 β = 90
c = 109.01 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 -- 2000-02-05
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
2 87.71 99.9 0.083 -- -- 14.1 27911 27911 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)
2.0 2.11 100.0 0.324 -- -- 13.4 --

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 87.71 -- 0.0 -- 26509 1402 99.96 -- 0.16221 0.16108 0.18353 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 -- 93 1927 0.171 0.189 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.963
Anisotropic B[1][1] -0.3
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.6
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.009
r_dihedral_angle_1_deg 3.695
r_scbond_it 1.791
r_bond_other_d 0.001
r_nbd_other 0.201
r_dihedral_angle_3_deg 17.735
r_symmetry_hbond_refined 0.247
r_mcangle_it 1.182
r_angle_refined_deg 1.294
r_scangle_it 2.965
r_mcbond_it 0.634
r_xyhbond_nbd_refined 0.129
r_angle_other_deg 0.743
r_gen_planes_refined 0.005
r_nbd_refined 0.205
r_symmetry_vdw_other 0.224
r_chiral_restr 0.077
r_gen_planes_other 0.002
r_symmetry_vdw_refined 0.093
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2229
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 169

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
MOSFLM data collection
SCALA data reduction
AMoRE model building
REFMAC version: 5.0 refinement