X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 277.0
Details PEG 8000, Bicine, Manganese Chloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.49 α = 90
b = 88.49 β = 90
c = 113.9 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2002-02-09
Diffraction Radiation
Monochromator Protocol
Rh-coated Si SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.916 CHESS F1

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
2.84 30 97.4 0.057 -- -- 3.6 24715 23974 0.0 0.0 44.6
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)
2.8 2.9 98.2 0.227 -- 6.9 3.6 2409

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 2.84 28.97 -- 0.0 23516 22156 1080 94.2 -- 0.286 0.286 0.298 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 2.84 3.02 -- 165 3276 0.434 0.418 0.033 88.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 74.4
Anisotropic B[1][1] -30.01
Anisotropic B[1][2] -5.64
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -30.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 60.02
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 5.77
c_scbond_it 3.3
c_mcangle_it 4.46
c_mcbond_it 2.58
c_improper_angle_d 1.42
c_dihedral_angle_d 24.4
c_angle_deg 1.7
c_bond_d 0.014
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.54
Luzzati Sigma A (Observed) 0.88
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.58
Luzzati Sigma A (R-Free Set) 0.75
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7191
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 42

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
CNS 1.1 Structure Refinement
Software
Software Name Purpose
CNS version: 1.1 refinement