X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 293.0
Details 30% PEG400, 0.2M Na Citrate; 0.1M Tris, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 149.24 α = 90
b = 149.24 β = 90
c = 81.14 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD mirrors 2007-12-18
Diffraction Radiation
Monochromator Protocol
graphite SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.000 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
2.2 50 99.9 -- 0.12 -- 9.0 47378 47378 -- -3.0 --
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)
2.2 2.28 100.0 -- 0.786 4.2 8.8 4648

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 2.3 50.0 -- 0.0 47378 39131 2051 83.0 -- 0.19476 0.19274 0.23173 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 2.3 2.36 -- 160 2826 0.213 0.283 -- 99.93
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.604
Anisotropic B[1][1] 0.72
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.72
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.45
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.011
r_dihedral_angle_4_deg 20.184
r_mcangle_it 1.436
r_chiral_restr 0.094
r_angle_refined_deg 1.423
r_scangle_it 3.054
r_dihedral_angle_1_deg 6.837
r_mcbond_it 0.737
r_dihedral_angle_2_deg 38.287
r_scbond_it 1.894
r_dihedral_angle_3_deg 15.395
r_gen_planes_refined 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5448
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 311

Software

Software
Software Name Purpose
REFMAC refinement version: 5.4.0057
MAR345 data collection
HKL-3000 data reduction
SCALEPACK data scaling
PHASER phasing