X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 293.0
Details 5% (w/v) PEG 4000, 10mM Tris-HCl, 300mM NaCl, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.88 α = 90
b = 120.2 β = 111.85
c = 58.04 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 96
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-02-10
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.979 APS 24-ID-C

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
1.99 50 82.0 -- -- -- -- 51367 51367 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)
1.99 2.03 69.2 -- -- -- -- --

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 2.2 40.115 -- 0.0 30329 30327 1567 79.65 -- 0.1962 0.1939 0.238 --
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 2.2 2.271 -- 85 1506 0.201 0.2506 -- 46.0
X Ray Diffraction 2.271 2.3522 -- 112 1708 0.2129 0.2515 -- 53.0
X Ray Diffraction 2.3522 2.4463 -- 105 1957 0.2267 0.2935 -- 60.0
X Ray Diffraction 2.4463 2.5577 -- 118 2274 0.2378 0.287 -- 69.0
X Ray Diffraction 2.5577 2.6925 -- 139 2499 0.246 0.297 -- 77.0
X Ray Diffraction 2.6925 2.8611 -- 158 2847 0.2478 0.3402 -- 87.0
X Ray Diffraction 2.8611 3.082 -- 163 3207 0.2434 0.2947 -- 97.0
X Ray Diffraction 3.082 3.392 -- 177 3220 0.2097 0.2665 -- 98.0
X Ray Diffraction 3.392 3.8824 -- 184 3220 0.1726 0.2291 -- 98.0
X Ray Diffraction 3.8824 4.8901 -- 168 3170 0.1334 0.1679 -- 97.0
X Ray Diffraction 4.8901 40.1212 -- 158 3152 0.1688 0.161 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 2.56
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.7236
Anisotropic B[2][2] 3.5032
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.6775
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.072
f_dihedral_angle_d 20.453
f_angle_d 1.084
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2533
Nucleic Acid Atoms 650
Heterogen Atoms 3
Solvent Atoms 405

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
PHASER model building
ADSC version: Quantum data collection