X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.2
Details 8% PEG 4000, 2% EG, 200MM A.S, 100MM CITRATE PH 5.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 147.02 α = 90
b = 57.09 β = 91.52
c = 117.01 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE FUJI -- --
Diffraction Radiation
Monochromator Protocol
-- --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4A 0.9879, 1.0070 NSLS X4A

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
2.3 20 89.2 -- 0.075 -- 4.35 -- 38809 -- -- 34.2

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 2.3 6.0 -- 0.0 -- 36317 1833 88.7 -- 0.202 0.202 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 2.3 2.44 -- 205 3959 0.277 0.325 0.023 61.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 32.3
Anisotropic B[1][1] -4.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.27
Anisotropic B[2][2] 5.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.28
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 2.47
x_scbond_it 1.53
x_mcangle_it 2.62
x_mcbond_it 1.54
x_improper_angle_d 1.39
x_bond_d 0.01
x_angle_deg 1.63
x_dihedral_angle_d 26.7
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.26
Luzzati Sigma A (Observed) 0.31
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.33
Luzzati Sigma A (R-Free Set) 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6336
Nucleic Acid Atoms 0
Heterogen Atoms 84
Solvent Atoms 349

Software

Computing
Computing Package Purpose
HKL, DENZO Data Reduction (intensity integration)
CCP4 (AGROVATA, SCALA) Data Reduction (data scaling)
X-PLOR Structure Solution
X-PLOR Structure Refinement
Software
Software Name Purpose
X-PLOR refinement
X-PLOR model building
AGROVATA version: DETECTOR TYPE : NULL DETECTOR MANUFACTURER : NULL INTENSITY-INTEGRATION SOFTWARE : NULL DATA SCALING SOFTWARE : NULL data reduction
SCALA data reduction
DENZO data collection
HKL data collection