X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 3.8
Temperature 300.0
Details 100mM sodium acetate buffer, 10mM cupric acetate, 25% ethanol as precipitant, pH 3.8, VAPOR DIFFUSION, HANGING DROP, temperature 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 29.32 α = 69.25
b = 37.5 β = 79.71
c = 50.74 γ = 85.39
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Mirrors 1998-10-29
Diffraction Radiation
Monochromator Protocol
GRAPHITE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
1.8 20 90.11 0.062 -- -- -- 16633 16633 0.0 0.0 7.8
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)
1.8 1.9 84.9 -- 0.364 1.73 1.9 2355

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 1.8 20.0 0.0 0.0 13549 13549 1356 73.5 -- -- 0.1825 0.2216 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 1.8 1.94 893 98 -- 0.2027 0.2452 -- --
X Ray Diffraction 2.03 2.13 1129 138 -- 0.1784 0.218 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 18.6
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] -0.12
Anisotropic B[1][3] 0.4
Anisotropic B[2][2] 2.27
Anisotropic B[2][3] 1.05
Anisotropic B[3][3] -2.26
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.005
c_dihedral_angle_d 23.8
c_angle_deg 1.2
c_improper_angle_d 0.67
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.19
Luzzati Sigma A (Observed) 0.13
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.24
Luzzati Sigma A (R-Free Set) 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1642
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 133

Software

Software
Software Name Purpose
DENZO data reduction
MARSCALE data reduction
AMoRE phasing
CNS refinement version: 1.0
MARSCALE data scaling