7OGZ

Plant peptide hormone receptor complex H1L3S1


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5IXO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP52910.2 M magnesium chloride 0.1 M HEPES pH 7.5 25 % w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
3.0559.73

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89.838α = 90
b = 144.501β = 90
c = 168.432γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2019-11-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.000029SLSX06DA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
12.748.1799.90.3160.350.1490.9975.710.360957
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)
12.72.771.9652.1640.90.82110.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE5IXO2.747.65760863306599.820.3540.35260.370848.532
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]
7.128-0.13-6.998
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.963
r_dihedral_angle_other_1_deg20.38
r_dihedral_angle_3_deg14.426
r_dihedral_angle_4_deg14.004
r_lrange_it8.455
r_lrange_other8.455
r_dihedral_angle_1_deg5.583
r_mcangle_it3.031
r_mcangle_other3.031
r_scangle_it2.599
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.963
r_dihedral_angle_other_1_deg20.38
r_dihedral_angle_3_deg14.426
r_dihedral_angle_4_deg14.004
r_lrange_it8.455
r_lrange_other8.455
r_dihedral_angle_1_deg5.583
r_mcangle_it3.031
r_mcangle_other3.031
r_scangle_it2.599
r_scangle_other2.599
r_mcbond_other1.747
r_mcbond_it1.746
r_scbond_it1.573
r_scbond_other1.573
r_angle_refined_deg1.366
r_angle_other_deg1.327
r_nbd_other0.235
r_symmetry_nbd_other0.192
r_nbd_refined0.183
r_symmetry_nbd_refined0.162
r_nbtor_refined0.159
r_xyhbond_nbd_refined0.131
r_symmetry_xyhbond_nbd_refined0.127
r_symmetry_nbtor_other0.083
r_ext_dist_refined_d0.076
r_ncsr_local_group_10.073
r_ncsr_local_group_20.07
r_ncsr_local_group_30.056
r_symmetry_xyhbond_nbd_other0.055
r_chiral_restr0.054
r_bond_refined_d0.005
r_gen_planes_refined0.004
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11587
Nucleic Acid Atoms
Solvent Atoms23
Heterogen Atoms428

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
xia2data reduction
Cootmodel building
PHASERphasing