X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details PEG 8K, sodium cacodylate, glycerol, pH 7.0, vapor diffusion, hanging drop, temperature 298K, VAPOR DIFFUSION, HANGING DROP

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.24 α = 90
b = 92.65 β = 90
c = 105.25 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 ADSC QUANTUM 315 -- 2006-08-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.979 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
1.89 50 98.7 0.101 -- -- 5.6 -- 35790 -- -- --
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)
1.89 1.96 100.0 0.49 -- -- 5.5 3555

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
-- 1.89 32.38 -- 0.0 -- 34033 1685 95.19 -- 0.187 0.185 0.218 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 1.891 1.94 -- 108 2156 0.182 0.251 -- 86.38
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.86
RMS Deviations
Key Refinement Restraint Deviation
MAIN-CHAIN BOND REFINED ATOMS (A''2) 0.741
r_dihedral_angle_2_deg 25.731
r_bond_refined_d 0.01
r_dihedral_angle_3_deg 13.905
SIDE-CHAIN BOND REFINED ATOMS (A''2) 1.693
r_nbd_refined 0.191
SIDE-CHAIN ANGLE REFINED ATOMS (A''2) 2.631
r_dihedral_angle_4_deg 15.886
r_angle_refined_deg 1.347
r_nbtor_refined 0.304
MAIN-CHAIN ANGLE REFINED ATOMS (A''2) 1.168
r_xyhbond_nbd_refined 0.12
r_symmetry_vdw_refined 0.14
r_gen_planes_refined 0.005
r_dihedral_angle_1_deg 5.453
r_symmetry_hbond_refined 0.171
CHIRAL-CENTER RESTRAINTS (A''3) 0.082
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1963
Nucleic Acid Atoms 575
Heterogen Atoms 1
Solvent Atoms 244

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.2.0019
PDB_EXTRACT data extraction version: 3.006
HKL-2000 data collection
CNS phasing