X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 293.0
Details 15-18% PEG 3350, 300-500mM LiCl2, 100mM Mes pH 5.5, vapor diffusion, hanging drop, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 29.52 α = 63.39
b = 38.15 β = 85.74
c = 40.71 γ = 84.69
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm monochromator + mirror 2007-04-24
Diffraction Radiation
Monochromator Protocol
SILICON SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4C 0.9790 NSLS X4C

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
1.37 36.37 100.0 -- -- -- -- 33460 33444 0.0 0.0 --

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 1.367 34.033 -- 2.05 33444 31382 1600 93.79 -- 0.1467 0.1456 0.1678 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 1.3667 1.4108 -- 141 2575 0.1704 0.2146 -- 89.0
X Ray Diffraction 1.4108 1.4613 -- 147 2671 0.168 0.187 -- 93.0
X Ray Diffraction 1.4613 1.5198 -- 143 2635 0.152 0.1734 -- 92.0
X Ray Diffraction 1.5198 1.5889 -- 136 2715 0.1504 0.1802 -- 93.0
X Ray Diffraction 1.5889 1.6727 -- 149 2644 0.1488 0.1722 -- 92.0
X Ray Diffraction 1.6727 1.7775 -- 136 2666 0.1459 0.1604 -- 92.0
X Ray Diffraction 1.7775 1.9147 -- 139 2710 0.1378 0.1489 -- 94.0
X Ray Diffraction 1.9147 2.1074 -- 148 2820 0.13 0.1442 -- 97.0
X Ray Diffraction 2.1074 2.4123 -- 150 2797 0.1347 0.1542 -- 98.0
X Ray Diffraction 2.4123 3.0389 -- 155 2823 0.1469 0.1761 -- 98.0
X Ray Diffraction 3.0389 34.0432 -- 156 2726 0.1445 0.1657 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.5199
Anisotropic B[1][1] 1.3203
Anisotropic B[1][2] 0.494
Anisotropic B[1][3] 0.2071
Anisotropic B[2][2] -0.8605
Anisotropic B[2][3] 0.0188
Anisotropic B[3][3] -1.3115
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.086
f_angle_d 1.022
f_plane_restr 0.005
f_bond_d 0.007
f_dihedral_angle_d 16.701
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1430
Nucleic Acid Atoms 0
Heterogen Atoms 4
Solvent Atoms 229

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing version: 1.3.1
PHENIX refinement
PDB_EXTRACT data extraction version: 3.10
MAR345 data collection version: software