X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.35
Temperature 293.0
Details 0.1M of bis-Tris-methane pH 6.35, 0.1 M sodium malonate and 16 % (w/v) PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.33 α = 90
b = 119.04 β = 90
c = 150.85 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 225 mm CCD -- 2009-10-08
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I911-3 0.999 MAX_II I911-3

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
2.75 42.1 99.6 0.103 -- -- 3.6 44634 44634 0.0 0.0 --
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)
2.75 2.9 97.7 0.63 -- 2.0 3.5 6293

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
MOLECULAR REPLACEMENT 2.75 41.87 -- -- 42346 42346 2250 99.45 0.24421 0.24421 0.24263 0.27396 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 2.75 2.821 -- 157 2941 0.366 0.378 -- 95.35
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.037
Anisotropic B[1][1] -0.35
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.07
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 1.423
r_bond_other_d 0.004
r_dihedral_angle_3_deg 17.492
r_chiral_restr 0.065
r_mcbond_other 0.069
r_bond_refined_d 0.012
r_gen_planes_refined 0.005
r_dihedral_angle_2_deg 35.892
r_angle_refined_deg 1.261
r_dihedral_angle_4_deg 20.024
r_scangle_it 2.627
r_mcbond_it 0.577
r_gen_planes_other 0.003
r_mcangle_it 1.126
r_dihedral_angle_1_deg 6.438
r_angle_other_deg 0.935
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11574
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 107

Software

Software
Software Name Purpose
MxCuBE data collection
PHASER phasing
REFMAC refinement version: 5.5.0109
MOSFLM data reduction
SCALA data scaling