X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.3
Temperature 298.0
Details MPD, magnesium chloride, cacodylate, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 6.30

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 29.89 α = 90
b = 41.86 β = 90
c = 51.1 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
CCD APS-1 MIRRORS 1999-05-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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
1.5 14.95 93.9 -- -- -- -- -- 10079 -- 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
MOLECULAR REPLACEMENT 1.5 15.0 -- 0.0 9590 9590 489 93.9 -- 0.206 0.204 0.239 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 1.5 1.54 -- 30 637 0.174 0.268 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.01
Anisotropic B[1][1] -2.04
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.69
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.65
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 2.406
r_sphericity_free 2.794
r_rigid_bond_restr 1.653
r_scangle_it 2.954
r_scbond_it 2.232
r_nbd_refined 0.141
r_gen_planes_refined 0.018
r_chiral_restr 0.077
r_angle_other_deg 1.135
r_angle_refined_deg 1.987
r_bond_other_d 0.003
r_bond_refined_d 0.017
r_nbd_other 0.267
r_nbtor_other 0.159
r_xyhbond_nbd_refined 0.162
r_symmetry_vdw_refined 0.101
r_symmetry_vdw_other 0.181
r_symmetry_hbond_refined 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 536
Heterogen Atoms 5
Solvent Atoms 170

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.13 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.13 refinement