7ODV

Plant peptide hormone receptor complex H1LS1


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 K/Na tartrate 20% w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
3.3463.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 97.332α = 90
b = 145.878β = 90
c = 169.539γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2019-09-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.000000SLSX06DA

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
12.31110.6041000.3190.3320.090.9988.326106364
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)
12.312.353.5183.6520.9810.70326.7

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-VALUE5IXO2.31110.58106247532699.9840.2560.25460.27542.702
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]
6.324-2.049-4.274
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.441
r_dihedral_angle_4_deg17.709
r_dihedral_angle_other_1_deg17.146
r_dihedral_angle_3_deg14.653
r_lrange_it8.16
r_lrange_other8.159
r_scangle_it5.918
r_scangle_other5.918
r_dihedral_angle_1_deg5.242
r_dihedral_angle_other_3_deg4.957
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.441
r_dihedral_angle_4_deg17.709
r_dihedral_angle_other_1_deg17.146
r_dihedral_angle_3_deg14.653
r_lrange_it8.16
r_lrange_other8.159
r_scangle_it5.918
r_scangle_other5.918
r_dihedral_angle_1_deg5.242
r_dihedral_angle_other_3_deg4.957
r_mcangle_it4.79
r_mcangle_other4.79
r_scbond_it3.896
r_scbond_other3.895
r_mcbond_it3.163
r_mcbond_other3.163
r_angle_other_deg1.28
r_angle_refined_deg1.25
r_symmetry_xyhbond_nbd_refined0.203
r_symmetry_nbd_other0.183
r_metal_ion_refined0.179
r_nbd_refined0.176
r_nbd_other0.165
r_nbtor_refined0.155
r_symmetry_nbd_refined0.155
r_xyhbond_nbd_refined0.133
r_ncsr_local_group_30.117
r_ext_dist_refined_d0.111
r_symmetry_nbtor_other0.077
r_ncsr_local_group_20.061
r_ncsr_local_group_10.06
r_chiral_restr0.056
r_bond_refined_d0.004
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11809
Nucleic Acid Atoms
Solvent Atoms362
Heterogen Atoms624

Software

Software
Software NamePurpose
REFMACrefinement
REFMACrefinement
xia2data reduction
Aimlessdata scaling
PHASERphasing