5XPE

Neutron structure of the T26H mutant of T4 lysozyme


X-RAY DIFFRACTION - NEUTRON DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QT8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7293Sodium-potassium phosphate, Sodium chloride, 1,6-Hexanediol
Crystal Properties
Matthews coefficientSolvent content
2.8156.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 61.23α = 90
b = 61.23β = 90
c = 96.791γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293CCDRAYONIX MX225HE2015-05-11MSINGLE WAVELENGTH
21neutron100IMAGE PLATEMAATEL IMAGINE2014-12-17LLAUE
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL26B11.0000SPring-8BL26B1
2NUCLEAR REACTORORNL High Flux Isotope Reactor BEAMLINE CG4D3.3-4.5ORNL High Flux Isotope ReactorCG4D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)CC (Half)R Split (All)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.64846.50599.90.0530.0530.0570.01865.210.825927
22.09917.10779.80.2220.2220.2560.1234.13.210108
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)R Merge I (Observed)R-Sym I (Observed)Rrim I (All)Rpim I (All)CC (Half)R Split (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.651.710.5270.5270.5620.1920.9175.38.5
22.12.210.3320.3320.3960.2112.22.6
22.212.350.3370.3370.3930.1962.12.9
22.352.510.320.320.3720.1852.13
22.512.710.3050.3050.360.1872.22.8
22.712.970.2630.2630.3090.1592.62.9
22.973.320.2450.2450.2860.1442.83.1
23.323.830.2140.2140.2450.1173.13.5
23.834.70.1930.1930.2170.0973.24.1
24.76.640.1730.1730.1950.0863.44.2
26.6417.1070.0960.0960.1130.0585.53

Refinement

Statistics
Diffraction IDStructure Solution MethodResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENT1.64846.5051.3525888130399.680.15650.1550.1846Random selection39.71
NEUTRON DIFFRACTIONMOLECULAR REPLACEMENT2.0917.0251010751378.350.22750.22470.278Random selection
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d18.092
f_angle_d1.432
f_chiral_restr0.09
f_bond_d0.016
f_plane_restr0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1312
Nucleic Acid Atoms
Solvent Atoms203
Heterogen Atoms5

Software

Software
Software NamePurpose
LAUEGENdata processing
SCALAdata scaling
PDB_EXTRACTdata extraction
PHENIXrefinement
Cootmodel building