X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 294.0
Details 0.1 M Bis-Tris and 20% PEG5000 MME, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.47 α = 90
b = 67.45 β = 90
c = 150.35 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 QUANTUM 210 -- 2012-03-18
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 0.97670 CHESS A1

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
1.85 75.16 99.4 -- 0.085 -- 5.2 38988 38754 1.0 1.0 --
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)
1.85 1.88 93.06 -- 0.404 2.29 3.1 2612

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 1.85 75.16 1.0 1.0 38988 38754 2049 99.4 0.173 0.1737 0.172 0.20633 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 1.853 1.901 -- 135 2612 0.202 0.2 -- 93.06
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.267
Anisotropic B[1][1] -0.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.56
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 4.698
r_dihedral_angle_3_deg 12.912
r_scangle_it 2.056
r_symmetry_hbond_refined 0.131
r_gen_planes_refined 0.003
r_dihedral_angle_4_deg 18.431
r_scbond_it 1.273
r_bond_refined_d 0.008
r_dihedral_angle_2_deg 38.879
r_nbtor_refined 0.297
r_chiral_restr 0.067
r_symmetry_vdw_refined 0.161
r_xyhbond_nbd_refined 0.12
r_mcangle_it 0.656
r_nbd_refined 0.182
r_angle_refined_deg 1.037
r_mcbond_it 0.426
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3774
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 474

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASER phasing
REFMAC refinement version: 5.2.0019
HKL-2000 data reduction
HKL-2000 data scaling