X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.9
Temperature 277.0
Details alcohol, pH 6.9, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.85 α = 90
b = 58.56 β = 90
c = 150.47 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M dynamically bendable mirror 2007-11-29
Diffraction Radiation
Monochromator Protocol
LN2-cooled fixed-exit Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.000 SLS X06SA

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
1.49 54.55 99.9 0.077 -- -- 6.0 68596 68595 0.0 0.0 21.956
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)
1.49 1.53 99.8 0.434 -- -- 3.7 --

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
OTHER 1.49 54.55 0.0 0.0 65127 65127 3428 99.94 0.18243 0.18243 0.18096 0.20978 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 1.49 1.529 -- 250 4762 0.326 0.35 -- 99.84
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.789
Anisotropic B[1][1] 0.56
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.72
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.16
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.198
r_bond_refined_d 0.01
r_symmetry_vdw_other 0.323
r_mcbond_other 0.552
r_chiral_restr 0.08
r_dihedral_angle_2_deg 32.902
r_nbd_other 0.186
r_gen_planes_refined 0.005
r_angle_refined_deg 1.372
r_symmetry_vdw_refined 0.14
r_gen_planes_other 0.001
r_mcangle_it 2.971
r_scbond_it 5.001
r_nbtor_other 0.081
r_angle_other_deg 0.845
r_dihedral_angle_4_deg 20.659
r_symmetry_hbond_refined 0.188
r_dihedral_angle_1_deg 6.004
r_nbtor_refined 0.178
r_xyhbond_nbd_refined 0.163
r_bond_other_d 0.005
r_mcbond_it 2.927
r_scangle_it 6.776
r_dihedral_angle_3_deg 13.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2696
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 393

Software

Software
Software Name Purpose
MOLREP phasing
REFMAC refinement version: 5.2.0005
XDS data reduction
XSCALE data scaling