7OGO

Plant peptide hormone receptor H1I1S1


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 ammonium citrate pH 7.0 20 % w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
3.463.84

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 98.735α = 90
b = 146.405β = 90
c = 169.645γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2019-10-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA0.999990SLSX06DA

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
12.38169.641000.3410.3540.0960.9989.52699190
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)
12.382.423.6623.8091.0430.66925.7

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-VALUE5IXO2.38111.08399095497499.9930.2350.23430.247643.014
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]
5.042-1.347-3.695
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.716
r_dihedral_angle_other_1_deg28.808
r_dihedral_angle_4_deg14.701
r_dihedral_angle_3_deg13.031
r_dihedral_angle_other_3_deg6.173
r_lrange_it5.908
r_lrange_other5.908
r_dihedral_angle_1_deg5.442
r_scangle_it3.482
r_scangle_other3.482
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.716
r_dihedral_angle_other_1_deg28.808
r_dihedral_angle_4_deg14.701
r_dihedral_angle_3_deg13.031
r_dihedral_angle_other_3_deg6.173
r_lrange_it5.908
r_lrange_other5.908
r_dihedral_angle_1_deg5.442
r_scangle_it3.482
r_scangle_other3.482
r_mcangle_it2.775
r_mcangle_other2.775
r_scbond_it2.389
r_scbond_other2.389
r_mcbond_it1.705
r_mcbond_other1.705
r_angle_other_deg1.295
r_angle_refined_deg1.264
r_symmetry_xyhbond_nbd_refined0.186
r_nbd_other0.183
r_symmetry_nbd_other0.182
r_nbd_refined0.174
r_nbtor_refined0.155
r_xyhbond_nbd_refined0.125
r_ext_dist_refined_d0.116
r_symmetry_nbd_refined0.112
r_symmetry_nbtor_other0.085
r_ncsr_local_group_30.079
r_ncsr_local_group_10.063
r_ncsr_local_group_20.063
r_chiral_restr0.058
r_symmetry_xyhbond_nbd_other0.034
r_xyhbond_nbd_other0.02
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 Atoms11770
Nucleic Acid Atoms
Solvent Atoms276
Heterogen Atoms707

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
xia2data reduction
Cootmodel building
PHASERphasing