X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Temperature 293.0
Details 20.9000% polyethylene glycol 3350, 0.2360M di-ammonium tartrate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.64 α = 90
b = 109 β = 90
c = 207.56 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 MARMOSAIC 325 mm CCD FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR 2009-01-19
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL MONOCHROMATOR MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162,0.97959,0.97944 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
2 29.77 99.8 0.064 -- -- -- -- 120764 -- -3.0 27.26
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)
2.0 2.05 100.0 0.676 -- 1.1 -- --

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 2.0 29.77 -- -- -- 120713 6076 99.7 -- 0.168 0.165 0.206 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 2.0 2.05 -- 458 8389 0.251 0.299 -- 99.8
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.58
Anisotropic B[1][1] -0.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.6
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.2
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 34.631
r_mcangle_it 2.382
r_angle_refined_deg 1.465
r_gen_planes_refined 0.006
r_gen_planes_other 0.001
r_dihedral_angle_1_deg 3.479
r_bond_refined_d 0.012
r_dihedral_angle_3_deg 10.319
r_mcbond_it 1.428
r_bond_other_d 0.002
r_mcbond_other 0.41
r_scangle_it 6.268
r_scbond_it 4.355
r_chiral_restr 0.089
r_angle_other_deg 0.986
r_dihedral_angle_4_deg 15.782
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13080
Nucleic Acid Atoms 0
Heterogen Atoms 124
Solvent Atoms 1004

Software

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