X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 277.0
Details Na Acetate, Imidazole, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 95.57 α = 90
b = 95.57 β = 90
c = 80.86 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-06-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 -- ALS 8.3.1

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
2 82.76 99.9 0.057 0.057 -- 4.2 -- 28420 1.5 1.5 --
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)
2.0 2.11 100.0 0.715 0.715 1.0 4.1 --

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 2.0 81.65 -- 1.5 28435 26945 1435 99.81 -- 0.183 0.181 0.216 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 2.0 2.052 -- 109 2004 0.289 0.334 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.228
Anisotropic B[1][1] 1.24
Anisotropic B[1][2] 0.62
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.86
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.0
r_chiral_restr 0.094
r_xyhbond_nbd_refined 0.177
r_scbond_it 1.899
r_symmetry_vdw_other 0.346
r_nbtor_other 0.085
r_dihedral_angle_1_deg 3.178
r_nbd_refined 0.26
r_scangle_it 3.118
r_symmetry_vdw_refined 0.338
r_angle_other_deg 0.735
r_bond_refined_d 0.013
r_symmetry_hbond_refined 0.299
r_nbd_other 0.287
r_mcbond_it 0.723
r_angle_refined_deg 1.568
r_gen_planes_other 0.002
r_mcangle_it 1.362
r_gen_planes_refined 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2230
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 123

Software

Software
Software Name Purpose
SCALA data scaling
REFMAC refinement version: 5.1.25
PDB_EXTRACT data extraction version: 1.600
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
MOLREP phasing