X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 25 mM MES pH6.5 12% PEG 8000, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.77 α = 90
b = 87.08 β = 90.04
c = 79.68 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 300 mm CCD -- 2011-10-12
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID

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
2.3 30 94.2 0.079 -- -- 3.9 37378 35327 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)
2.3 2.38 98.6 0.294 -- -- 4.0 3693

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 2.31 29.39 -- 0.0 37523 35266 1754 93.53 0.1876 0.1876 0.1855 0.228 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 2.31 2.38 -- 144 2629 0.2032 0.2664 -- 93.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.631
Anisotropic B[1][1] 2.8937
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.2817
Anisotropic B[2][2] -12.4557
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 9.562
RMS Deviations
Key Refinement Restraint Deviation
t_ideal_dist_contact 0.0
t_bond_d 0.009
t_omega_torsion 3.41
t_other_torsion 17.92
t_dihedral_angle_d 0.0
t_it 0.0
t_trig_c_planes 0.0
t_gen_planes 0.0
t_angle_deg 1.07
t_chiral_improper_torsion 0.0
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.305
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6326
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 289

Software

Software
Software Name Purpose
SCALEPACK data scaling
PHASER phasing version: 2.3.0
BUSTER-TNT refinement
PDB_EXTRACT data extraction version: 3.10
MAR345dtb data collection
HKL data reduction
BUSTER refinement version: 2.10.0