X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.4
Details 40%(W/V) AMMONIUM SULFATE, 2%(V/V) PEG400, 0.1M TRIS (PH 8.5), CROSSLINKING WITH 0.1% GLUTARALDEHYDE, TRANSFER TO AMMONIUM SULFATE-FREE, 30% PEG4000, CHANGE OF THE BUFFER TO 0.1M SODIUM ACETATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 107.18 α = 90
b = 91.32 β = 92.04
c = 128.41 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH COLLIMATOR 1998-08-15
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTAING ANODE RIGAKU RU200 -- -- --

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
1.9 30 92.4 -- 0.109 -- 2.5 -- 91478 -- -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)
1.9 1.97 75.8 -- 0.384 2.0 -- --

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 1.9 10.0 -- 2.0 -- 79365 1561 82.1 -- 0.171 0.171 0.199 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 1.9 1.97 -- 101 5841 0.316 0.338 0.033 62.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 18.2
Anisotropic B[1][1] -2.413
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.176
Anisotropic B[2][2] 1.288
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.125
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.5
c_scbond_it 2.0
c_mcangle_it 2.0
c_mcbond_it 1.5
c_improper_angle_d 0.729
c_bond_d 0.0048
c_angle_deg 1.285
c_dihedral_angle_d 23.62
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.34
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.23
Luzzati Sigma A (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9860
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 881

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement