6KTM

The ligand-free structure of human PPARgamma ligand-binding domain R288A mutant in the presence of the SRC-1 coactivator peptide

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	296	2.2 M sodium malonate (pH 7.0)

Crystal Properties
Matthews coefficient	Solvent content
2.72	54.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 131.47	α = 90
b = 52.696	β = 90
c = 53.669	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 270		2015-10-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PAL/PLS BEAMLINE 7A (6B, 6C1)	0.97933	PAL/PLS	7A (6B, 6C1)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	2.7	50	99.6	0.079	41.1	9.5		10775

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.7	2.75	100		0.704

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	6JQ7	2.7	30.002	10735	551	99.49	0.219	0.2166	0.2575	72.077

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]
-4.565			1.978		2.587

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.336
r_dihedral_angle_4_deg	24.745
r_dihedral_angle_3_deg	16.014
r_lrange_other	12.44
r_lrange_it	12.439
r_scangle_it	8.726
r_scangle_other	8.72
r_mcangle_it	7.148
r_mcangle_other	7.145
r_scbond_it	5.415
r_scbond_other	5.409
r_dihedral_angle_1_deg	4.66
r_mcbond_it	4.602
r_mcbond_other	4.598
r_angle_refined_deg	1.314
r_angle_other_deg	1.213
r_nbd_other	0.38
r_symmetry_nbd_refined	0.335
r_symmetry_xyhbond_nbd_refined	0.254
r_nbd_refined	0.211
r_symmetry_nbd_other	0.199
r_xyhbond_nbd_refined	0.183
r_nbtor_refined	0.16
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.057
r_symmetry_xyhbond_nbd_other	0.017
r_bond_refined_d	0.005
r_gen_planes_refined	0.005
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2174
Nucleic Acid Atoms
Solvent Atoms	20
Heterogen Atoms

Software

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