X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 30MG/ML, 15% PEG3350, 250MM MGCL2, 5MM TRIS PH8.0, 20% ETHYLENE GLYCOL, pH 8.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.91 α = 115.18
b = 74.68 β = 93.14
c = 87.59 γ = 109.33
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD MIRRORS 2001-07-13
Diffraction Radiation
Monochromator Protocol
DIAMOND (111), GE(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 -- ESRF BM14

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
1.48 20 97.6 0.073 -- -- 4.2 -- 235655 -- -- --
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)
1.48 1.56 90.4 0.345 -- 1.6 3.6 --

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
SIRAS 1.48 20.0 -- -- -- 233691 1894 96.8 -- 0.133 0.133 0.168 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 1.48 1.52 -- 134 14735 0.203 0.284 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 10.86
Anisotropic B[1][1] 0.46
Anisotropic B[1][2] 0.11
Anisotropic B[1][3] -0.16
Anisotropic B[2][2] -0.1
Anisotropic B[2][3] -0.3
Anisotropic B[3][3] -0.56
RMS Deviations
Key Refinement Restraint Deviation
r_bond_other_d 0.001
r_scbond_it 2.577
r_dihedral_angle_1_deg 4.919
r_nbd_other 0.207
r_nbd_refined 0.251
r_mcbond_it 1.271
r_dihedral_angle_3_deg 16.102
r_gen_planes_other 0.002
r_xyhbond_nbd_other 0.082
r_bond_refined_d 0.016
r_scangle_it 3.724
r_symmetry_vdw_refined 0.183
r_symmetry_vdw_other 0.211
r_chiral_restr 0.122
r_angle_refined_deg 1.589
r_nbtor_other 0.194
r_symmetry_hbond_refined 0.213
r_xyhbond_nbd_refined 0.151
r_gen_planes_refined 0.009
r_angle_other_deg 2.019
r_mcangle_it 1.833
r_metal_ion_refined 0.123
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11376
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 1766

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
DENZO data reduction
SCALA data scaling