X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 277.0
Details 20.00% polyethylene glycol 6000, 0.20M magnesium chloride, 0.1M sodium cacodylate pH 6.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.59 α = 90
b = 173.54 β = 90
c = 59.22 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (ho rizontal focusing) 2011-05-26
Diffraction Radiation
Monochromator Protocol
single crystal Si(111) bent MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97944,0.97899 SSRL BL11-1

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
1.7 29.63 97.1 0.089 -- -- -- -- 107089 -- -3.0 16.942
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)
1.7 1.76 94.7 0.644 -- 1.5 -- --

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 1.7 29.633 -- 0.0 -- 107051 5339 99.18 -- 0.1404 0.1387 0.1742 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 1.7 1.744 -- 376 7388 0.222 0.256 -- 98.08
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.9933
Anisotropic B[1][1] 0.82
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.64
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.19
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_other 0.268
r_mcangle_it 1.302
r_angle_refined_deg 1.453
r_scangle_it 3.318
r_scbond_it 2.182
r_bond_refined_d 0.016
r_gen_planes_refined 0.008
r_chiral_restr 0.093
r_dihedral_angle_1_deg 5.446
r_gen_planes_other 0.002
r_dihedral_angle_2_deg 37.908
r_dihedral_angle_3_deg 12.094
r_dihedral_angle_4_deg 18.336
r_bond_other_d 0.001
r_angle_other_deg 0.958
r_mcbond_it 0.775
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7530
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 1355

Software

Software
Software Name Purpose
MolProbity model building version: 3beta29
PDB_EXTRACT data extraction version: 3.10
SHELX phasing
SHARP phasing
XSCALE data scaling version: December 6, 2010
REFMAC refinement version: 5.5.0110
XDS data reduction
SHELXD phasing