X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details PEG 4000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67 α = 90
b = 82.6 β = 90
c = 86.8 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 PSI PILATUS 6M -- 2008-11-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.0 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
2.4 19.94 95.8 0.09 0.08 -- 6.3 19433 18612 2.0 2.0 --
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)
2.4 2.5 91.5 0.42 0.39 5.2 6.5 2015

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 2.4 19.94 -- -- -- 18338 966 100.0 -- 0.20512 0.20123 0.27908 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 2.4 2.461 -- 70 1321 0.227 0.304 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.177
Anisotropic B[1][1] 0.92
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.94
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.013
r_symmetry_vdw_refined 0.244
r_nbtor_refined 0.3
r_metal_ion_refined 0.203
r_dihedral_angle_3_deg 18.651
r_chiral_restr 0.094
r_dihedral_angle_4_deg 19.341
r_nbd_refined 0.23
r_scbond_it 1.625
r_mcbond_it 0.612
r_mcangle_it 1.158
r_gen_planes_refined 0.004
r_scangle_it 2.698
r_dihedral_angle_1_deg 5.864
r_symmetry_hbond_refined 0.399
r_dihedral_angle_2_deg 37.087
r_xyhbond_nbd_refined 0.177
r_angle_refined_deg 1.513
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3535
Nucleic Acid Atoms 0
Heterogen Atoms 68
Solvent Atoms 125

Software

Software
Software Name Purpose
MOLREP phasing
REFMAC refinement version: 5.2.0019
XDS data reduction
XSCALE data scaling