X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.6
Temperature 277.0
Details PEG 200, isopropanol, magnesium chloride, ammonium acetate, TRIS, pH 7.6, VAPOR DIFFUSION, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.4 α = 93.7
b = 45.5 β = 98.1
c = 56.3 γ = 104.4
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
3 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- --
IMAGE PLATE MARRESEARCH -- --
CCD ADSC QUANTUM 4 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12C 0.92 NSLS X12C
SYNCHROTRON NSLS BEAMLINE X12C 1.15 NSLS X12C
SYNCHROTRON CHESS BEAMLINE A1 0.908 CHESS A1

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 50 99.9 0.087 -- -- 10.0 26797 26797 0.0 0.0 31.1
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)
2.0 2.1 99.5 0.139 -- 10.0 7.6 --

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
MIR 2.0 50.0 0.0 0.0 26793 26793 1326 99.9 -- -- 0.2488 0.2835 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 2.0 2.07 2547 131 -- 0.2741 0.3322 -- --
X Ray Diffraction 2.52 2.71 2543 145 -- 0.2582 0.2961 -- --
X Ray Diffraction 2.71 2.99 2572 127 -- 0.2894 0.3479 -- --
X Ray Diffraction 2.99 3.42 2543 124 -- 0.2628 0.3014 -- --
X Ray Diffraction 3.42 4.31 2539 133 -- 0.2234 0.2585 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model anisotropic
Mean Isotropic B 43.8603
Anisotropic B[1][1] -6.688
Anisotropic B[1][2] 0.656
Anisotropic B[1][3] -0.959
Anisotropic B[2][2] 9.71
Anisotropic B[2][3] 7.436
Anisotropic B[3][3] -3.022
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.00658
c_angle_deg 0.87827
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.28
Luzzati Sigma A (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.35
Luzzati Sigma A (R-Free Set) 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2492
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 178

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
MLPHARE Structure Solution
CNS 0.9 Structure Refinement
Software
Software Name Purpose
CNS version: 0.9 refinement
MLPHARE model building