X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 300.0
Details MPD, calcium Chloride, ammonium chloride, meta-ammonium vanadate, pH 5.0, VAPOR DIFFUSION, SITTING DROP at 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 259.8 α = 90
b = 44.3 β = 107
c = 102.4 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 150
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV Osmic mirrors 2001-12-12
Diffraction Radiation
Monochromator Protocol
osmic mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200B 1.5418 -- --

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
2.6 30 98.8 -- 0.066 -- 3.3 34446 34446 0.0 0.0 70.9
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)
2.6 2.69 96.4 -- 0.608 1.7 -- 3285

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 2.6 27.7 0.0 0.0 34442 34442 3464 98.4 -- 0.223 0.223 0.28 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 2.6 2.76 -- 535 4968 0.442 0.482 0.021 95.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 93.7
Anisotropic B[1][1] -2.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 22.25
Anisotropic B[2][2] 3.96
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.52
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.006
c_improper_angle_d 1.65
c_dihedral_angle_d 18.5
c_scangle_it 12.09
c_mcbond_it 4.14
c_angle_deg 1.2
c_scbond_it 9.93
c_mcangle_it 5.51
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.54
Luzzati Sigma A (R-Free Set) 0.63
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1498
Nucleic Acid Atoms 4812
Heterogen Atoms 26
Solvent Atoms 45

Software

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