X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 0.1M HEPES 7.5, 0.3M NACL, 21% PEG6K, 5MM TCEP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 53.89 α = 90
b = 90.3 β = 90
c = 164.35 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC MIRRORS 2007-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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
3.1 50 99.2 0.1 -- -- 9.1 -- 16223 -- -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)
3.1 3.34 96.1 0.38 -- 5.5 7.8 --

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 3.1 24.42 -- -- -- 14268 759 99.2 -- 0.209 0.207 0.249 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 3.1 3.18 -- 50 929 0.315 0.422 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.0
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.01
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.582
r_scbond_it 2.021
r_mcangle_it 1.65
r_mcbond_it 0.862
r_nbd_refined 0.295
r_gen_planes_refined 0.008
r_chiral_restr 0.078
r_dihedral_angle_4_deg 22.516
r_dihedral_angle_3_deg 20.739
r_dihedral_angle_2_deg 40.202
r_dihedral_angle_1_deg 8.24
r_angle_refined_deg 1.311
r_bond_refined_d 0.016
r_nbtor_refined 0.335
r_xyhbond_nbd_refined 0.202
r_symmetry_vdw_refined 0.212
r_symmetry_hbond_refined 0.424
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4813
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 73

Software

Computing
Computing Package Purpose
HKL2000 Data Reduction (intensity integration)
HKL2000 Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.3.0026 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.3.0026 refinement
PHASER model building