X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 277.0
Details LiSO4, PEG 400, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 123.53 α = 90
b = 169.5 β = 90
c = 87.72 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 NOIR-1 monochromator 2007-11-30
Diffraction Radiation
Monochromator Protocol
double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 4.2.2 1.0720 ALS 4.2.2

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
3.1 50 97.2 -- 0.15 -- 5.5 32644 32644 0.0 0.0 46.0
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)
3.1 3.21 92.8 -- 0.551 2.6 5.4 3071

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 3.115 42.375 0.0 0.0 33689 32490 1651 96.52 0.227 0.227 0.224 0.283 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 3.115 3.207 -- 130 2318 0.289 0.323 -- 89.08
X Ray Diffraction 3.207 3.31 -- 143 2403 0.266 0.309 -- 92.48
X Ray Diffraction 3.31 3.429 -- 135 2421 0.249 0.31 -- 92.41
X Ray Diffraction 3.429 3.566 -- 140 2442 0.24 0.288 -- 93.42
X Ray Diffraction 3.566 3.728 -- 145 2538 0.226 0.283 -- 96.2
X Ray Diffraction 3.728 3.924 -- 131 2583 0.24 0.301 -- 98.08
X Ray Diffraction 3.924 4.17 -- 133 2618 0.225 0.321 -- 98.57
X Ray Diffraction 4.17 4.492 -- 141 2625 0.196 0.273 -- 99.46
X Ray Diffraction 4.492 4.943 -- 118 2682 0.176 0.232 -- 99.26
X Ray Diffraction 4.943 5.657 -- 151 2670 0.199 0.261 -- 99.75
X Ray Diffraction 5.657 7.122 -- 131 2720 0.218 0.279 -- 99.89
X Ray Diffraction 7.122 42.379 -- 153 2819 0.186 0.223 -- 99.07
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.44
Anisotropic B[1][1] -1.021
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -9.186
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 10.206
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.091
f_angle_d 1.419
f_dihedral_angle_d 21.015
f_plane_restr 0.006
f_bond_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9285
Nucleic Acid Atoms 0
Heterogen Atoms 83
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.004
HKL-2000 data collection
HKL-2000 data reduction
HKL-2000 data scaling