X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 8.5
Temperature 277.0
Details 40.0% polyethylene glycol 400, 0.2M lithium sulfate, 0.1M TRIS pH 8.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.43 α = 90
b = 143.64 β = 90
c = 233.68 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 -- 2006-08-31
Diffraction Radiation
Monochromator Protocol
Double Crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 -- ALS 8.2.2

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
2.6 29.44 99.6 0.083 -- -- -- -- 54381 -- -- 45.6
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)
2.6 2.69 97.5 0.401 -- 2.9 -- --

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 2.6 29.437 -- 0.0 -- 54312 2764 99.68 -- 0.19 0.188 0.224 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 2.599 2.667 3859 205 3654 0.235 0.299 -- 97.8
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.271
Anisotropic B[1][1] -0.86
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.66
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.002
r_scbond_it 4.899
r_angle_other_deg 0.92
r_mcangle_it 2.6
r_dihedral_angle_3_deg 15.916
r_mcbond_it 1.566
r_symmetry_vdw_refined 0.342
r_angle_refined_deg 1.5
r_xyhbond_nbd_other 0.081
r_dihedral_angle_4_deg 18.814
r_nbd_refined 0.216
r_dihedral_angle_2_deg 35.56
r_symmetry_hbond_refined 0.098
r_symmetry_vdw_other 0.174
r_bond_refined_d 0.014
r_xyhbond_nbd_refined 0.17
r_nbd_other 0.188
r_chiral_restr 0.072
r_nbtor_refined 0.175
r_dihedral_angle_1_deg 5.492
r_scangle_it 6.797
r_bond_other_d 0.002
r_nbtor_other 0.086
r_gen_planes_refined 0.004
r_mcbond_other 0.238
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9095
Nucleic Acid Atoms 0
Heterogen Atoms 216
Solvent Atoms 280

Software

Software
Software Name Purpose
MolProbity model building version: 3beta29
SHELX phasing
REFMAC refinement version: 5.2.0019
XSCALE data scaling
PDB_EXTRACT data extraction version: 2.000
XDS data reduction
SHELXD phasing
autoSHARP phasing