X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 295.0
Details K/NA PHOSPHATE, MPD, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 136.09 α = 90
b = 88.12 β = 90
c = 45.24 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 CUSTOM-MADE -- 2001-05-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 1.033 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 42 92.5 -- 0.113 -- 6.3 -- 81282 0.0 -3.0 --
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)
1.5 1.55 71.5 -- 0.431 2.9 3.7 6180

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 41.89 -- 0.0 -- 74678 3977 96.85 -- 0.18552 0.18432 0.20814 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 3602 207 3602 0.231 0.245 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.187
Anisotropic B[1][1] -0.41
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.55
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.14
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.008
r_nbtor_other 0.434
r_symmetry_vdw_other 0.299
r_xyhbond_nbd_other 0.204
r_gen_planes_other 0.008
r_chiral_restr 0.169
r_scangle_it 4.609
r_angle_other_deg 3.173
r_bond_other_d 0.001
r_scbond_it 2.755
r_angle_refined_deg 1.643
r_gen_planes_refined 0.007
r_dihedral_angle_1_deg 4.602
r_xyhbond_nbd_refined 0.165
r_dihedral_angle_3_deg 17.108
r_symmetry_hbond_refined 0.12
r_bond_refined_d 0.014
r_mcangle_it 1.902
r_nbd_refined 0.216
r_nbd_other 0.201
r_symmetry_vdw_refined 0.234
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3121
Nucleic Acid Atoms 0
Heterogen Atoms 68
Solvent Atoms 416

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
REFMAC refinement version: 5.0
CNS phasing