X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 290.0
Details MPD, CaCl2, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.38 α = 90
b = 23.79 β = 110.13
c = 37.12 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.811 EMBL/DESY, HAMBURG X11

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
1.8 34.92 98.3 0.06 -- -- 3.71 5158 5158 1.0 1.0 20.904
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)
1.8 2.1 98.4 0.2 -- 6.06 3.73 1885

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 1.8 34.92 1.0 1.0 5229 4920 236 98.49 -- 0.20872 0.20629 0.26361 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 1.8 1.847 -- 28 369 0.253 0.331 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.443
Anisotropic B[1][1] -0.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.1
Anisotropic B[2][2] 1.55
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.18
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.269
r_scbond_it 2.111
r_symmetry_hbond_refined 0.124
r_symmetry_vdw_other 0.314
r_symmetry_vdw_refined 0.107
r_bond_refined_d 0.008
r_bond_other_d 0.001
r_angle_refined_deg 1.731
r_angle_other_deg 1.501
r_chiral_restr 0.053
r_gen_planes_refined 0.007
r_gen_planes_other 0.0
r_nbd_refined 0.125
r_nbd_other 0.193
r_nbtor_other 0.094
r_xyhbond_nbd_refined 0.175
r_metal_ion_refined 0.244
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 404
Heterogen Atoms 2
Solvent Atoms 91

Software

Computing
Computing Package Purpose
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement