X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details 30 MG/ML PROTEIN IN 0.025M TRIS-HCL DIALYZED AGAINST SAME BUFFER MADE AS 10% (V/V) ETHANOL AT PH 8.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 84.52 α = 90
b = 99.8 β = 90
c = 103.93 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 288
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH PIN HOLE 1997-10
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING 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
2.7 17 90.0 0.12 0.12 -- 3.0 -- 21691 -- -3.0 53.5
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)
2.7 2.8 81.0 0.27 0.27 2.0 2.2 --

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 2.7 17.0 -- 0.0 -- 21691 1084 90.0 -- -- 0.213 0.274 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 2.7 2.89 -- 151 2873 0.348 0.398 0.023 81.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.7
RMS Deviations
Key Refinement Restraint Deviation
x_dihedral_angle_d 23.7
x_angle_deg 2.0
x_improper_angle_d 2.05
x_bond_d 0.013
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.4
Luzzati Resolution Cutoff (Low) 17.0
Luzzati ESD (R-Free Set) 0.41
Luzzati Sigma A (R-Free Set) 0.48
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5281
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 70

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
X-PLOR 3.851 Structure Refinement
Software
Software Name Purpose
AMORE model building
DENZO data collection
SCALEPACK data reduction
X-PLOR version: 3.851 refinement