X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 277.0
Details sodium citrate, isopropanol, PEG 4000, xylitol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.2 α = 90
b = 94.2 β = 90
c = 187.62 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2001-12-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 1.0 ALS 5.0.1

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
1.57 81.65 99.0 -- 0.089 -- 19.4 68455 68455 -3.0 -3.0 --

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 1.57 81.65 -3.0 -3.0 68455 65003 3452 98.86 0.16685 0.16685 0.16593 0.18396 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 1.57 1.611 -- 250 4198 0.246 0.275 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.504
Anisotropic B[1][1] 0.43
Anisotropic B[1][2] 0.21
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.43
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.64
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.007
r_chiral_restr 0.125
r_symmetry_vdw_refined 0.358
r_scangle_it 4.241
r_mcangle_it 1.509
r_nbd_refined 0.211
r_metal_ion_refined 0.062
r_angle_refined_deg 1.729
r_xyhbond_nbd_refined 0.145
r_dihedral_angle_1_deg 5.728
r_mcbond_it 0.888
r_scbond_it 2.547
r_bond_refined_d 0.018
r_symmetry_hbond_refined 0.235
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2558
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 447

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
MOSFLM data reduction
CCP4 data scaling version: (SCALA
TRUNCATE data scaling
EPMR phasing