5UTC

Deoxy form of sperm whale myoglobin V68A/I107Y


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2940.1 M Tris-HCl, 1 mM EDTA, pH 7.4 2.56 M Ammonium Sulfate
Crystal Properties
Matthews coefficientSolvent content
1.935.12

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 34.454α = 90
b = 30.565β = 105.58
c = 63.811γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 200K2013-11-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.54178

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (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
11.831990.0460.0560.03139.5312004
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.8394.30.070.0890.0540.9862.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.826.371139660198.90.18870.18560.2504RANDOM23.633
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]
-0.34-0.410.96-0.44
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.092
r_dihedral_angle_4_deg23.637
r_dihedral_angle_3_deg14.795
r_dihedral_angle_1_deg5.166
r_angle_refined_deg1.875
r_angle_other_deg0.929
r_chiral_restr0.157
r_bond_refined_d0.018
r_gen_planes_refined0.011
r_gen_planes_other0.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.092
r_dihedral_angle_4_deg23.637
r_dihedral_angle_3_deg14.795
r_dihedral_angle_1_deg5.166
r_angle_refined_deg1.875
r_angle_other_deg0.929
r_chiral_restr0.157
r_bond_refined_d0.018
r_gen_planes_refined0.011
r_gen_planes_other0.005
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1214
Nucleic Acid Atoms
Solvent Atoms91
Heterogen Atoms70

Software

Software
Software NamePurpose
HKL-3000data collection
HKL-3000data scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKLdata scaling