X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 291.0
Details 1.8 mM ammonium sulfate, 0.1 M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.15 α = 90
b = 45.15 β = 90
c = 104.04 γ = 120
Symmetry
Space Group P 3 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-12-05
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.9724 ESRF ID23-1

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
1.7 20 94.8 0.041 -- -- 3.2 14282 13505 2.0 2.0 --
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)
1.7 1.76 80.4 0.098 -- -- 2.1 1124

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 1.7 15.0 -- 0.0 -- 13498 666 94.78 -- 0.214 0.2125 0.2444 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 1.7 1.74 -- 48 764 0.198 0.197 -- 78.23
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.382
Anisotropic B[1][1] 0.49
Anisotropic B[1][2] 0.25
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.74
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.083
r_nbtor_other 0.059
r_nbtor_refined 0.242
r_angle_refined_deg 1.865
r_chiral_restr 0.074
r_bond_refined_d 0.011
r_nbd_refined 0.109
r_bond_other_d 0.003
r_gen_planes_refined 0.009
r_xyhbond_nbd_refined 0.162
r_gen_planes_other 0.001
r_symmetry_hbond_refined 0.273
r_scbond_it 1.353
r_symmetry_vdw_other 0.129
r_scangle_it 1.828
r_nbd_other 0.26
r_symmetry_vdw_refined 0.063
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 822
Heterogen Atoms 0
Solvent Atoms 164

Software

Software
Software Name Purpose
HKL data reduction
AMoRE phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
ADSC data collection version: Quantum
HKL data scaling