X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 0.1M BisTris, 25% PEG3350, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.89 α = 90
b = 70.28 β = 108.68
c = 42.35 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 -- 2007-12-14
Diffraction Radiation
Monochromator Protocol
custom SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97915 APS 19-BM

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
1.5 40 94.6 0.046 -- -- 3.0 34380 34380 -3.0 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)
1.5 1.53 68.8 0.269 -- 2.48 1.7 1241

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 1.5 26.44 -- -- 34380 34380 1710 94.6 0.1964 0.1964 0.19436 0.23388 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 1.5 1.53 1241 96 1764 0.297 0.409 -- 68.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.221
r_scbond_it 2.998
r_mcangle_it 2.071
r_mcbond_it 1.341
r_symmetry_hbond_refined 0.108
r_bond_refined_d 0.019
r_angle_refined_deg 1.833
r_dihedral_angle_1_deg 6.639
r_dihedral_angle_2_deg 37.755
r_dihedral_angle_3_deg 12.534
r_dihedral_angle_4_deg 18.26
r_chiral_restr 0.141
r_gen_planes_refined 0.01
r_nbd_refined 0.244
r_nbtor_refined 0.309
r_xyhbond_nbd_refined 0.161
r_symmetry_vdw_refined 0.218
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.1815
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1874
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 215

Software

Computing
Computing Package Purpose
HKL-3000 Data Collection
HKL-3000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phaser Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement
Phaser model building
HKL-3000 data collection