X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 298.0
Details 10% PEG6000, 2.0M NaCl, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 110.49 α = 90
b = 110.49 β = 90
c = 204.24 γ = 90
Symmetry
Space Group I 41 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-09-16
Diffraction Radiation
Monochromator Protocol
ACCEL/BRUKER double crystal monochromator (DCM) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-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
2.7 40 -- -- 0.053 -- 8.1 -- 17651 -- -- --
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)
2.7 2.8 -- -- 0.675 3.3 8.2 1733

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 2.7 40.0 -- -- -- 16706 900 99.08 -- 0.22521 0.22223 0.28699 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 2.7 2.77 -- 71 1198 0.313 0.455 -- 99.84
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 79.91
Anisotropic B[1][1] -1.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.0
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.013
r_scbond_it 2.656
r_gen_planes_refined 0.011
r_dihedral_angle_2_deg 36.706
r_angle_refined_deg 2.087
r_dihedral_angle_4_deg 18.632
r_chiral_restr 0.137
r_bond_refined_d 0.02
r_dihedral_angle_1_deg 8.161
r_dihedral_angle_3_deg 22.438
r_mcangle_it 1.934
r_scangle_it 4.437
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2863
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 39

Software

Software
Software Name Purpose
MXDS data collection
PHASER phasing
REFMAC refinement version: 5.5.0055
HKL-2000 data reduction
HKL-2000 data scaling