X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details 100 MM SODIUM CITRATE, PH 5.5, 8% PEG6000, 1M LICL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.15 α = 90.05
b = 140.86 β = 87.16
c = 167.08 γ = 75.63
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
Q-4 ADSC -- 2001-02-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X8C -- NSLS X8C

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
2.5 20 88.2 0.082 -- -- 2.0 -- 334606 -- 2.0 17.4
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)
2.5 2.59 76.0 0.214 -- 3.6 2.0 --

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 2.5 10.0 -- 2.0 -- 309710 23235 83.0 -- 0.21 0.21 0.256 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 2.5 2.52 -- 350 4517 0.297 0.347 0.019 65.1
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 20.4
Anisotropic B[1][1] 14.02
Anisotropic B[1][2] -5.44
Anisotropic B[1][3] -0.31
Anisotropic B[2][2] -6.03
Anisotropic B[2][3] -0.39
Anisotropic B[3][3] -7.99
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.49
c_scbond_it 1.72
c_mcangle_it 1.55
c_mcbond_it 0.95
c_improper_angle_d 0.83
c_bond_d 0.008
c_angle_deg 1.3
c_dihedral_angle_d 22.9
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.31
Luzzati Sigma A (Observed) 0.46
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.38
Luzzati Sigma A (R-Free Set) 0.52
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 69521
Nucleic Acid Atoms 0
Heterogen Atoms 949
Solvent Atoms 1049

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
COMO Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
COMO model building