X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8.5
Details 0.1M Tris, 2.3M Ammonium Sulfate, pH 8.5, vapor diffusion

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.35 α = 90
b = 62.35 β = 90
c = 383.38 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r MIRRORS 2010-07-06
Diffraction Radiation
Monochromator Protocol
SI 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.9792 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
2.45 50.01 98.2 0.108 -- -- 3.3 -- 30294 -- -- --
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)
2.45 2.49 99.9 0.435 -- -- 2.5 1607

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 2.45 50.0 -- 0.0 -- 30184 1524 98.12 -- 0.1902 0.1882 0.2272 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 2.45 2.514 -- 89 2152 0.274 0.392 -- 97.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.3658
Anisotropic B[1][1] -19.18
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -19.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 38.36
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.216
r_dihedral_angle_1_deg 5.869
r_dihedral_angle_4_deg 17.309
r_gen_planes_refined 0.006
r_dihedral_angle_2_deg 34.941
r_gen_planes_other 0.004
r_bond_other_d 0.005
r_chiral_restr 0.109
r_angle_refined_deg 1.536
r_dihedral_angle_3_deg 14.333
r_bond_refined_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6287
Nucleic Acid Atoms 0
Heterogen Atoms 77
Solvent Atoms 162

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
DM phasing
REFMAC refinement version: 5.6.0117
PDB_EXTRACT data extraction version: 3.10