X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 277.0
Details 0.2000M KThioCyanate, 20.0000% PEG-3350, No Buffer pH 7.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.57 α = 90
b = 66.63 β = 111.96
c = 54.41 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-03-19
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97932,0.97911 SSRL BL9-2

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
1.9 28.38 100.0 0.09 0.09 -- 3.8 -- 24939 -- -- 23.082
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)
1.9 1.95 100.0 0.761 0.761 1.9 3.8 1820

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
MAD 1.9 28.375 -- 0.0 -- 24920 1268 99.96 -- 0.182 0.18 0.226 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 1.9 1.949 -- 92 1721 0.269 0.346 -- 99.89
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.721
Anisotropic B[1][1] -1.49
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.71
Anisotropic B[2][2] 1.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.98
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.002
r_mcangle_it 3.179
r_chiral_restr 0.098
r_bond_refined_d 0.017
r_angle_refined_deg 1.574
r_scbond_it 5.441
r_mcbond_other 0.595
r_dihedral_angle_2_deg 31.629
r_dihedral_angle_4_deg 15.443
r_mcbond_it 2.054
r_angle_other_deg 1.06
r_dihedral_angle_1_deg 5.217
r_gen_planes_refined 0.007
r_dihedral_angle_3_deg 14.375
r_bond_other_d 0.003
r_scangle_it 7.655
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2312
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 165

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0053
PHENIX refinement
SHELX phasing
MolProbity model building version: 3beta29
SCALA data scaling version: 3.2.5
PDB_EXTRACT data extraction version: 3.006
MOSFLM data reduction
autoSHARP phasing