X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 9.5
Temperature 277.0
Details 10% PEG-3000, 0.1M CHES pH 9.5, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.97 α = 90
b = 62.97 β = 90
c = 167.1 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2003-06-19
Diffraction Radiation
Monochromator Protocol
Double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 -- ALS 5.0.2

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
2.05 50 100.0 -- 0.112 -- 5.82 12634 12634 -- -- 53.02
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)
2.05 2.12 98.17 -- 0.912 1.53 5.04 1231

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 2.3 38.97 -- -- -- 8737 443 97.99 -- 0.19743 0.19483 0.25324 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 2.3 2.36 -- 26 619 0.287 0.427 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 47.357
Anisotropic B[1][1] 2.04
Anisotropic B[1][2] 1.02
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.05
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.807
r_scangle_it 2.585
r_nbtor_other 0.085
r_nbd_other 0.165
r_bond_refined_d 0.019
r_xyhbond_nbd_refined 0.22
r_symmetry_vdw_other 0.306
r_dihedral_angle_1_deg 6.467
r_symmetry_vdw_refined 0.215
r_mcangle_it 1.137
r_dihedral_angle_3_deg 14.405
r_gen_planes_other 0.001
r_dihedral_angle_2_deg 34.407
r_gen_planes_refined 0.005
r_bond_other_d 0.001
r_nbd_refined 0.217
r_angle_refined_deg 1.419
r_mcbond_it 0.797
r_symmetry_hbond_refined 0.168
r_chiral_restr 0.08
r_angle_other_deg 0.782
r_dihedral_angle_4_deg 19.652
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1024
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 111

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SOLVE phasing
RESOLVE model building
REFMAC refinement version: 5.1.9999
RESOLVE phasing