X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 300.0
Details 30% PEG-400, 0.1M HEPES, pH 8.0, 0.2M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 190.98 α = 90
b = 50.86 β = 113.51
c = 149.64 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2003-05-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID -- APS 17-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
1.98 50 97.3 0.06 -- -- 3.0 -- 90018 1.0 1.0 --
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)
1.98 2.05 82.3 0.293 -- -- 2.7 7562

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 1.98 50.0 -- 0.0 -- 90017 9030 97.57 0.189 0.189 0.186 0.213 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 1.982 2.033 5631 558 5073 0.253 0.283 -- 82.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.884
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 4.884
r_bond_refined_d 0.021
r_dihedral_angle_4_deg 14.619
r_mcbond_it 1.332
r_dihedral_angle_2_deg 37.848
r_xyhbond_nbd_refined 0.141
r_gen_planes_refined 0.009
r_symmetry_hbond_refined 0.158
r_mcangle_it 1.562
r_angle_refined_deg 1.606
r_nbtor_refined 0.308
r_nbd_refined 0.233
r_dihedral_angle_3_deg 12.653
r_chiral_restr 0.103
r_scangle_it 3.835
r_symmetry_vdw_refined 0.378
r_scbond_it 2.595
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8685
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 583

Software

Software
Software Name Purpose
REFMAC refinement
SCALEPACK data scaling
CNS refinement
DM phasing version: 4.2
DENZO data reduction
PDB_EXTRACT data extraction version: 1.701
MAR345 data collection
CNS phasing