X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9
Temperature 277.0
Details sodium citrate, isopropanol, PEG 4000, xylitol, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.67 α = 90
b = 93.67 β = 90
c = 185.92 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 -- 2002-07-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.0 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
1.3 81.65 98.4 -- 0.053 -- 4.1 109999 109999 -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 1.3 81.65 -3.0 -3.0 109999 104506 5493 98.36 0.16856 0.16856 0.16777 0.18335 inherited from 1tm3
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 1.3 1.334 -- 385 6583 0.279 0.291 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.128
Anisotropic B[1][1] 0.2
Anisotropic B[1][2] 0.1
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.3
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.43
r_bond_refined_d 0.019
r_dihedral_angle_1_deg 5.866
r_metal_ion_refined 0.054
r_mcbond_it 0.931
r_xyhbond_nbd_refined 0.165
r_mcangle_it 1.567
r_symmetry_hbond_refined 0.161
r_nbd_refined 0.217
r_scangle_it 4.304
r_angle_refined_deg 1.915
r_chiral_restr 0.119
r_gen_planes_refined 0.008
r_scbond_it 2.652
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2566
Nucleic Acid Atoms 0
Heterogen Atoms 67
Solvent Atoms 449

Software

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