X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 298.0
Details potassium/sodium tartrate, imidazole, sodium chloride, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 225.92 α = 90
b = 225.92 β = 90
c = 218.67 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-10-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8110 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
3.2 20 95.9 0.02 -- -- 14.1 -- 52367 -- -- 26.7
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)
3.2 3.3 97.2 0.464 -- 6.0 13.5 4588

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 3.2 20.0 -- -- 52364 49745 2619 96.36 0.21883 0.21883 0.21699 0.25364 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 3.2 3.281 3605 190 3605 0.278 0.359 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.543
Anisotropic B[1][1] -3.66
Anisotropic B[1][2] -1.83
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.66
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.48
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.331
r_nbtor_other 0.097
r_angle_refined_deg 1.771
r_bond_refined_d 0.018
r_symmetry_vdw_other 0.275
r_bond_other_d 0.003
r_chiral_restr 0.095
r_nbd_refined 0.209
r_symmetry_vdw_refined 0.228
r_mcangle_it 0.961
r_xyhbond_nbd_refined 0.175
r_symmetry_hbond_refined 0.211
r_gen_planes_refined 0.006
r_dihedral_angle_1_deg 8.974
r_nbd_other 0.236
r_scangle_it 2.339
r_angle_other_deg 1.086
r_mcbond_it 0.499
r_gen_planes_other 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11063
Nucleic Acid Atoms 0
Heterogen Atoms 90
Solvent Atoms 0

Software

Computing
Computing Package Purpose
XDS Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement