X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 295.0
Details PEG 550 MME, calcium chloride, hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.85 α = 90
b = 105.85 β = 90
c = 73.5 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD SBC-2 -- 2003-07-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID

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
1.9 34.65 99.8 0.079 -- -- 11.9 36951 35211 0.0 0.0 16.7
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)
1.9 1.97 100.0 0.713 -- 3.6 -- --

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 1.9 34.65 -- 0.0 36951 35211 3496 95.3 -- -- 0.187 0.222 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 1.9 1.99 3974 392 3582 0.265 0.295 0.015 85.9
X Ray Diffraction 1.99 2.09 4301 453 3848 0.22 0.25 0.012 93.5
X Ray Diffraction 2.09 2.22 4410 442 3968 0.197 0.231 0.011 95.2
X Ray Diffraction 2.22 2.4 4348 412 3936 0.201 0.244 0.012 94.9
X Ray Diffraction 2.4 2.64 4461 407 4054 0.177 0.217 0.011 96.5
X Ray Diffraction 2.64 3.02 4516 482 4034 0.186 0.225 0.01 97.9
X Ray Diffraction 3.02 3.8 4601 470 4131 0.179 0.205 0.009 99.4
X Ray Diffraction 3.8 34.65 4600 438 4162 0.171 0.206 0.01 97.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.75
Anisotropic B[1][1] -0.86
Anisotropic B[1][2] 2.16
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.86
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.72
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.004
x_angle_deg 1.2
x_torsion_impr_deg 0.0
x_mcbond_it 3.4
x_scangle_it 7.98
x_torsion_deg 22.7
x_mcangle_it 4.26
x_scbond_it 5.83
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.19
Luzzati Sigma A (Observed) 0.18
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.23
Luzzati Sigma A (R-Free Set) 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2303
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 277

Software

Software
Software Name Purpose
CNS refinement version: 1.1
HKL-2000 data reduction
SCALEPACK data scaling
AMoRE phasing