X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 20% PEG4K, 100MM CITRATE BUFFER, PH5.0, 5MM DTT, 10% GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.74 α = 90
b = 105.89 β = 90
c = 126.12 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
IMAGE PLATE RIGAKU MIRRORS --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH2R -- -- --

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 27.2 96.5 0.14 -- -- 2.5 -- 75239 -- 0.0 --

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
OTHER 2.2 20.0 -- -- -- 55748 2983 100.0 -- 0.184 0.181 0.248 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 2.2 2.26 -- 215 4019 0.207 0.285 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.06
Anisotropic B[1][1] -0.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.09
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.57
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.052
r_scbond_it 2.749
r_mcangle_it 1.736
r_mcbond_it 1.12
r_nbd_refined 0.216
r_gen_planes_refined 0.007
r_chiral_restr 0.114
r_dihedral_angle_4_deg 16.352
r_dihedral_angle_3_deg 15.4
r_dihedral_angle_2_deg 32.975
r_dihedral_angle_1_deg 6.354
r_angle_refined_deg 1.705
r_bond_refined_d 0.019
r_nbtor_refined 0.304
r_xyhbond_nbd_refined 0.166
r_symmetry_vdw_refined 0.188
r_symmetry_hbond_refined 0.208
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8656
Nucleic Acid Atoms 0
Heterogen Atoms 128
Solvent Atoms 639

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.3.0006 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.3.0006 refinement