X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8.5
Temperature 293.0
Details PEG 10000, Imidazole/malate., pH 8.5, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.42 α = 118.55
b = 45.07 β = 92.63
c = 45.38 γ = 107.17
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2002-11-09
Diffraction Radiation
Monochromator Protocol
Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.97887 ESRF ID14-4

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
1.6 25.91 84.4 0.057 0.057 -- 1.9 34113 31333 4.8 -- --
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)
1.6 1.69 84.4 0.122 0.122 4.8 1.5 --

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 1.6 20.0 4.8 -- 37118 29762 1565 84.4 0.176 0.17602 0.17433 0.20843 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 1.6 1.641 -- 82 1355 0.183 0.247 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.55
Anisotropic B[1][1] -0.34
Anisotropic B[1][2] -0.02
Anisotropic B[1][3] -0.89
Anisotropic B[2][2] 0.47
Anisotropic B[2][3] 0.21
Anisotropic B[3][3] -0.03
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 2.853
r_symmetry_vdw_refined 0.132
r_mcangle_it 1.635
r_bond_other_d 0.004
r_chiral_restr 0.101
r_gen_planes_other 0.016
r_symmetry_vdw_other 0.36
r_nbtor_other 0.101
r_gen_planes_refined 0.009
r_mcbond_it 0.899
r_scangle_it 3.945
r_dihedral_angle_1_deg 4.872
r_bond_refined_d 0.015
r_xyhbond_nbd_refined 0.161
r_symmetry_hbond_refined 0.193
r_nbd_refined 0.216
r_nbd_other 0.248
r_scbond_it 2.564
r_angle_refined_deg 1.762
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1821
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 243

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
CCP4 data scaling version: (SCALA)
AMoRE phasing