8WUY

Crystal Structure of TR3 LBD in complex with para-positioned 3,4,5-trisubstituted benzene derivatives

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3V3E

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		277	PEG4000, Sodium citrate, Glycerol

Crystal Properties
Matthews coefficient	Solvent content
3.36	63.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.844	α = 90
b = 76.441	β = 90
c = 129.417	γ = 90

Symmetry
Space Group	P 21 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 6M		2018-10-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRF BEAMLINE BL18U1	0.979	SSRF	BL18U1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.6	50	99.9	0.889	19.769	6.3		23602

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.6	2.64			0.883

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.6	33.633	23602	1168	99.624	0.203	0.2006	0.2426	39.022

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]
0.194			0.054		-0.248

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.277
r_dihedral_angle_3_deg	19.463
r_dihedral_angle_4_deg	18.286
r_lrange_other	9.294
r_lrange_it	9.292
r_dihedral_angle_1_deg	6.126
r_scangle_it	5.924
r_scangle_other	5.922
r_mcangle_it	4.876
r_mcangle_other	4.876
r_scbond_it	3.706
r_scbond_other	3.705
r_mcbond_it	3.17
r_mcbond_other	3.165
r_angle_refined_deg	1.563
r_angle_other_deg	1.244
r_nbd_refined	0.213
r_nbd_other	0.191
r_symmetry_nbd_refined	0.185
r_symmetry_xyhbond_nbd_refined	0.184
r_symmetry_nbd_other	0.175
r_nbtor_refined	0.164
r_xyhbond_nbd_refined	0.164
r_xyhbond_nbd_other	0.12
r_symmetry_nbtor_other	0.084
r_chiral_restr	0.072
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3584
Nucleic Acid Atoms
Solvent Atoms	74
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing