7CXE

The ligand-free structure of human PPARgamma LBD R280C mutant

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	295	1.2 M Sodium citrate tribasic dihydrate, 0.1 M HEPES pH 7.5

Crystal Properties
Matthews coefficient	Solvent content
2.61	52.8

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 93.936	α = 90
b = 61.281	β = 102.424
c = 119.502	γ = 90

Symmetry
Space Group	C 1 2 1

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 EIGER X 4M		2017-12-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PHOTON FACTORY BEAMLINE BL-1A	1.1000	Photon Factory	BL-1A

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	2.5	50	91	1	19.43	5.2		21448

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	2.5	2.54	89.1		0.88	2.06	5.3

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6L8B	2.5	27.873	19845	983	85.458	0.218	0.2156	0.2645	41.205

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]
-0.117		-0.141	0.641		-0.421

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.133
r_dihedral_angle_4_deg	17.043
r_dihedral_angle_3_deg	13.791
r_lrange_other	5.873
r_lrange_it	5.871
r_dihedral_angle_1_deg	5.672
r_mcangle_it	3.14
r_mcangle_other	3.139
r_scangle_it	3.059
r_scangle_other	3.059
r_mcbond_it	1.812
r_mcbond_other	1.812
r_scbond_it	1.735
r_scbond_other	1.734
r_angle_refined_deg	1.216
r_angle_other_deg	1.096
r_symmetry_xyhbond_nbd_refined	0.286
r_symmetry_nbd_refined	0.198
r_nbd_refined	0.191
r_nbd_other	0.183
r_symmetry_nbd_other	0.177
r_xyhbond_nbd_refined	0.16
r_nbtor_refined	0.15
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.045
r_bond_refined_d	0.006
r_gen_planes_refined	0.004
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4136
Nucleic Acid Atoms
Solvent Atoms	50
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing