X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 297.0
Details 0.2M calicium Acetate, 0.1M Sodium cacodylate, 40% PEG 300, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.66 α = 90
b = 73.66 β = 90
c = 521.91 γ = 90
Symmetry
Space Group P 43 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-02-08
Diffraction Radiation
Monochromator Protocol
Si(111) double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97937 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
2.7 50 93.1 0.095 -- -- 8.3 39794 38504 -- -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)
2.7 2.72 100.0 0.618 -- 3.67 9.7 --

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
SAD 2.7 50.0 -- -- 38416 36491 1925 93.1 -- 0.21926 0.21685 0.26545 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 2.7 2.771 -- 177 2750 0.243 0.342 -- 99.12
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 71.973
Anisotropic B[1][1] 1.46
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.46
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.93
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.009
r_gen_planes_refined 0.005
r_dihedral_angle_1_deg 5.565
r_rigid_bond_restr 0.879
r_angle_refined_deg 1.206
r_dihedral_angle_4_deg 18.334
r_scangle_it 2.992
r_dihedral_angle_3_deg 16.742
r_chiral_restr 0.076
r_dihedral_angle_2_deg 37.107
r_mcbond_it 0.59
r_mcangle_it 1.125
r_scbond_it 1.766
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6457
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 111

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
HKL-3000 phasing
SHELXD phasing
SHELXE model building
MLPHARE phasing
DM model building
RESOLVE model building
Coot model building
ARP/wARP model building
CNS refinement
SBC-Collect data collection
HKL-3000 data reduction
HKL-3000 data scaling
DM phasing
RESOLVE phasing
CNS phasing