X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.6
Temperature 290.0
Details 50 mM Hepes pH 7.6, 50 mM CaCl2, 17% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.27 α = 90
b = 86.11 β = 90
c = 124.96 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
CCD ADSC QUANTUM 210 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 1.0000 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
2.1 50 88.5 -- 0.062 -- 4.1 -- 25944 -- -- 41.9
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)
2.1 2.18 83.6 -- 0.354 3.3 3.0 2407

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
FOURIER SYNTHESIS 2.1 33.73 -- -- -- 24598 1291 88.27 -- 0.21599 0.21444 0.24518 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 2.1 2.155 -- 98 1552 0.261 0.296 -- 76.28
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.223
Anisotropic B[1][1] -1.45
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.73
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 11.621
r_xyhbond_nbd_refined 0.127
r_angle_refined_deg 1.024
r_dihedral_angle_4_deg 15.78
r_nbd_refined 0.208
r_scbond_it 1.378
r_scangle_it 2.08
r_symmetry_vdw_refined 0.171
r_bond_refined_d 0.007
r_dihedral_angle_2_deg 36.053
r_nbtor_refined 0.303
r_dihedral_angle_1_deg 4.234
r_mcbond_it 0.771
r_mcangle_it 1.135
r_symmetry_hbond_refined 0.111
r_gen_planes_refined 0.003
r_chiral_restr 0.064
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2778
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 156

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
CNS refinement
ADSC data collection version: Quantum
DENZO data reduction
SCALEPACK data scaling
CNS phasing