3L9I

Myosin VI nucleotide-free (mdinsert2) L310G mutant crystal structure


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2BKH 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP92774% PEG 8000, 50mM Glycine pH9, 3% iso-propanol, 3% tert-butanol, 1mM TCEP , VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.9458.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.54α = 90
b = 104.4β = 91.09
c = 90.33γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2008-04-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSOLEIL BEAMLINE PROXIMA 11.1271SOLEILPROXIMA 1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)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
12.219.9799.40.06114.253.96455064176-3-341.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.22.2599.90.383.773.94157

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 REPLACEMENTTHROUGHOUT2BKH2.219.97609586095832091000.187110.187110.184630.23471RANDOM40.942
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
r_dihedral_angle_2_deg36.433
r_dihedral_angle_4_deg16.726
r_dihedral_angle_3_deg16.553
r_dihedral_angle_1_deg5.854
r_scangle_it3.373
r_scbond_it2.066
r_mcangle_it1.46
r_angle_refined_deg1.359
r_angle_other_deg0.898
r_mcbond_it0.785
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.433
r_dihedral_angle_4_deg16.726
r_dihedral_angle_3_deg16.553
r_dihedral_angle_1_deg5.854
r_scangle_it3.373
r_scbond_it2.066
r_mcangle_it1.46
r_angle_refined_deg1.359
r_angle_other_deg0.898
r_mcbond_it0.785
r_mcbond_other0.162
r_chiral_restr0.082
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7482
Nucleic Acid Atoms
Solvent Atoms829
Heterogen Atoms37

Software

Software
Software NamePurpose
ADSCdata collection
MOLREPphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling