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 = 99.25 α = 90
b = 99.25 β = 90
c = 80.3 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 -- 2002-01-25
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 80 99.4 -- -- -- -- -- 30439 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 2.05 98.9 -- -- -- -- --

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
SAD 2.0 80.0 -- 1.5 30439 28688 1535 99.3 -- 0.21269 0.2113 0.23896 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 -- 104 2101 0.305 0.315 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.124
Anisotropic B[1][1] 1.38
Anisotropic B[1][2] 0.69
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.07
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.572
r_scbond_it 1.582
r_mcangle_it 1.081
r_mcbond_it 0.588
r_symmetry_hbond_refined 0.121
r_symmetry_vdw_other 0.268
r_symmetry_vdw_refined 0.063
r_bond_refined_d 0.012
r_bond_other_d 0.002
r_angle_refined_deg 1.327
r_angle_other_deg 0.821
r_dihedral_angle_1_deg 2.961
r_chiral_restr 0.089
r_gen_planes_refined 0.004
r_gen_planes_other 0.002
r_nbd_refined 0.2
r_nbd_other 0.238
r_nbtor_other 0.081
r_xyhbond_nbd_refined 0.158
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2230
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 56

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.1.25 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.25 refinement