X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 5.4
Temperature 298.0
Details 1.5M ammonium sulfate, 0.35M ammonium phosphate then soaked to pH 5.4 in solutions of 3.35 M ammonium sulfate buffered with 0.2M ammonium phosphate, VAPOR DIFFUSION, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.11 α = 90
b = 63.33 β = 84.72
c = 53.85 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR UCSD MARK II -- 1997-09-15
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.5418 -- --

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
2.04 30 97.2 0.053 -- -- -- -- 21884 -- 2.0 --

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 2.05 54.23 -- 2.0 -- 21824 2160 95.46 0.189 0.16262 0.16262 0.188 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 2.05 2.103 -- 0 838 -- -- -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.383
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.04
Anisotropic B[2][2] 0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.1
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.499
r_scbond_it 2.613
r_mcangle_it 1.599
r_mcbond_it 0.778
r_symmetry_hbond_refined 0.1
r_symmetry_vdw_other 0.135
r_symmetry_vdw_refined 0.275
r_bond_refined_d 0.015
r_bond_other_d 0.001
r_angle_refined_deg 1.244
r_angle_other_deg 0.732
r_dihedral_angle_1_deg 3.282
r_dihedral_angle_2_deg 15.069
r_chiral_restr 0.076
r_gen_planes_refined 0.005
r_gen_planes_other 0.003
r_nbd_refined 0.228
r_nbd_other 0.187
r_xyhbond_nbd_refined 0.168
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2203
Nucleic Acid Atoms 0
Heterogen Atoms 86
Solvent Atoms 84

Software

Computing
Computing Package Purpose
SDMS Data Reduction (intensity integration)
SDMS Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
CNS model building
SDMS data reduction
SDMS data collection