X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 295.0
Details 15% PEG 10,000, 0.1M imidazole malate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.79 α = 90
b = 113.81 β = 90
c = 58.44 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2004-01-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1

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
1.7 46.1 96.5 -- 0.09 -- 4.5 54344 54344 0.0 -3.0 12.0
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)
1.7 1.73 97.7 -- 0.497 2.3 4.5 2730

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 1.7 46.1 -- 0.0 51760 51760 2559 96.33 0.19527 0.19527 0.19402 0.22076 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 1.7 1.744 -- 193 3704 0.223 0.282 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 10.691
Anisotropic B[1][1] 0.33
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.31
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.867
r_nbd_refined 0.224
r_mcbond_other 0.374
r_angle_other_deg 0.979
r_dihedral_angle_1_deg 6.416
r_dihedral_angle_4_deg 20.243
r_bond_refined_d 0.021
r_nbtor_other 0.085
r_dihedral_angle_3_deg 12.131
r_symmetry_vdw_refined 0.154
r_bond_other_d 0.001
r_mcbond_it 1.51
r_mcangle_it 1.815
r_scbond_it 3.024
r_scangle_it 4.063
r_chiral_restr 0.127
r_gen_planes_refined 0.009
r_dihedral_angle_2_deg 33.042
r_xyhbond_nbd_refined 0.134
r_gen_planes_other 0.001
r_nbd_other 0.199
r_symmetry_vdw_other 0.234
r_symmetry_hbond_refined 0.093
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3670
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 289

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.9999
DENZO data reduction
SCALEPACK data scaling
EPMR phasing