X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details pH 5.60

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 171.17 α = 90
b = 171.17 β = 90
c = 84.33 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4r TOROIDAL MIRROR 2000-06-01
Diffraction Radiation
Monochromator Protocol
DIAMOND(111) DIAMOND(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.9310,1.2820,1.2825,0.933 ESRF ID14-4

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
1.85 99 96.8 0.076 0.176 -- 2.6 -- 95547 -- 0.0 24.2
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)
1.92 1.99 99.2 0.465 0.597 2.2 2.5 --

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
MAD 1.92 119.5 -- 0.0 -- 88009 4581 96.9 -- 0.2 0.198 0.227 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 1.92 1.97 -- 327 6631 0.272 0.317 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.99
Anisotropic B[1][1] -1.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.52
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.04
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 2.626
r_dihedral_angle_1_deg 4.625
r_symmetry_hbond_other 0.088
r_metal_ion_refined 0.13
r_angle_refined_deg 1.907
r_xyhbond_nbd_refined 0.153
r_bond_other_d 0.008
r_angle_other_deg 1.451
r_gen_planes_other 0.008
r_gen_planes_refined 0.009
r_bond_refined_d 0.024
r_nbd_refined 0.238
r_nbd_other 0.219
r_nbtor_other 0.116
r_chiral_restr 0.112
r_mcangle_it 1.528
r_symmetry_vdw_other 0.173
r_symmetry_vdw_refined 0.192
r_mcbond_it 0.885
r_dihedral_angle_3_deg 18.109
r_scangle_it 4.094
r_xyhbond_nbd_other 0.111
r_sphericity_free 8.743
r_symmetry_hbond_refined 0.196
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7464
Nucleic Acid Atoms 0
Heterogen Atoms 88
Solvent Atoms 548

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SOLOMON phasing
REFMAC refinement version: 5.0