X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Details SITTING DROP METHOD: A SOLUTION OF 12 MG OF PROTEIN PER ML IN 10 MM HEPES, PH 7.0, 2 MM CA-CHLORIDE, MIXED WITH AN EQUAL VOLUME OF 50 MM K-PHOSPHATE, PH 7.0 AND 20% (BY WEIGHT) PEG 8000, vapor diffusion - sitting drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 45.45 α = 90
b = 65.82 β = 106.87
c = 69.61 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 294
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH COLLIMATOR 1995-04
Diffraction Radiation
Monochromator Protocol
GRAPHITE(002) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU FR-D -- -- --

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
1.76 33.33 98.3 0.056 0.056 -- 3.4 -- 38698 -- -- 19.34
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)
1.76 1.83 94.4 0.164 0.16 4.5 3.2 --

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 1.8 33.33 -- 0.0 -- 35910 1786 98.3 -- -- 0.168 0.219 RANDOM
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.83
RMS Deviations
Key Refinement Restraint Deviation
p_special_tor 0.0
p_staggered_tor 15.9
p_planar_tor 4.9
p_bond_d 0.015
p_angle_d 0.033
p_planar_d 0.035
p_mcbond_it 2.207
p_mcangle_it 3.131
p_scbond_it 2.84
p_scangle_it 4.099
p_chiral_restr 0.173
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati Resolution Cutoff (Low) 33.3
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3284
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 303

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
AMORE Structure Solution
REFMAC Structure Refinement
Software
Software Name Purpose
REFMAC refinement
AMORE model building
SCALA data reduction
DENZO data collection