X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 277.0
Details PEG4000, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.33 α = 90
b = 89.21 β = 90
c = 160.87 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 MARRESEARCH -- 2001-07-31
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 1.0 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
1.05 20 95.8 0.071 0.071 -- 2.6 440216 440216 0.0 0.0 --
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)
1.05 1.11 93.9 -- 0.485 1.6 1.9 62782

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 1.05 40.0 -- 0.0 440131 440131 2200 95.41 0.1339 0.13393 0.13393 0.153 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 1.05 1.077 31536 184 31536 0.3 0.324 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.815
Anisotropic B[1][1] 0.17
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_other 0.307
r_symmetry_hbond_other 0.094
r_nbd_refined 0.395
r_symmetry_hbond_refined 0.302
r_dihedral_angle_1_deg 5.086
r_rigid_bond_restr 1.382
r_mcangle_it 2.172
r_bond_refined_d 0.015
r_scangle_it 4.498
r_mcbond_it 1.468
r_chiral_restr 0.157
r_bond_other_d 0.001
r_angle_refined_deg 1.747
r_nbd_other 0.213
r_dihedral_angle_3_deg 15.938
r_scbond_it 3.0
r_gen_planes_refined 0.01
r_angle_other_deg 0.918
r_gen_planes_other 0.012
r_nbtor_other 0.987
r_symmetry_vdw_refined 0.426
r_sphericity_free 10.895
r_sphericity_bonded 4.947
r_symmetry_vdw_other 0.239
r_xyhbond_nbd_refined 0.241
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6908
Nucleic Acid Atoms 0
Heterogen Atoms 248
Solvent Atoms 1864

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
Beast model building
REFMAC refinement version: 5.0
CCP4 data scaling version: (SCALA)
BEAST phasing