7OGQ | pdb_00007ogq

Plant peptide hormone receptor H1I2S1

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5IXO

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5	291	0.2 M ammonium sulphate 0.1 M Bis-Tris 25 % w/v PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
3.53	65.21

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 86.817	α = 90
b = 88.078	β = 90
c = 166.367	γ = 90

Symmetry
Space Group	P 2 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 2M		2020-02-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	1.254716	SLS	X06DA

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)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.2	46.973	100	0.114	0.124	0.047	0.999	14.5	12.9		65575

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)	Redundancy	Number Unique Reflections (All)
1	2.2	2.25			1.992	2.202	0.93	0.465		10.7

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5IXO	2.2	46.973	65519	3215	99.98	0.2	0.198	0.21	0.2343	0.24	53.542

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]
-1.989			3.249		-1.26

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_other_1_deg	47.008
r_dihedral_angle_2_deg	40.796
r_dihedral_angle_4_deg	17.875
r_dihedral_angle_other_3_deg	14.959
r_dihedral_angle_3_deg	14.345
r_dihedral_angle_1_deg	6.271
r_lrange_it	5.058
r_lrange_other	5.054
r_scangle_it	4.808
r_scangle_other	4.704
r_scbond_it	3.446
r_scbond_other	3.371
r_mcangle_it	2.264
r_mcangle_other	2.263
r_mcbond_it	1.545
r_mcbond_other	1.545
r_angle_refined_deg	1.452
r_angle_other_deg	1.351
r_nbd_other	0.222
r_nbd_refined	0.191
r_symmetry_nbd_other	0.184
r_nbtor_refined	0.161
r_xyhbond_nbd_refined	0.144
r_symmetry_nbd_refined	0.136
r_symmetry_xyhbond_nbd_refined	0.117
r_symmetry_nbtor_other	0.111
r_chiral_restr	0.061
r_ext_dist_refined_d	0.034
r_bond_refined_d	0.009
r_gen_planes_refined	0.006
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5920
Nucleic Acid Atoms
Solvent Atoms	318
Heterogen Atoms	558

Software

Software
Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
xia2	data reduction
Coot	model building