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9v8e

PPARgamma ligand-binding domain in complex with PG11

Method: X-RAY DIFFRACTION D_max: 62.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9v8e
deposition_date	2025-05-29
title	PPARgamma ligand-binding domain in complex with PG11
keywords	Nuclear receptor, de novo peptide, TRANSCRIPTION; TRANSCRIPTION
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	20.10 Å
rg_electron	18.84 Å
i0	14905100.00
molecular_weight	30587.0 kDa
excluded_volume	39029 Å³
envelope_volume	44912 Å³
shell_volume	19955 Å³
envelope_diameter	63.0 Å
shell_rg	25.07 Å
envelope_rg	18.97 Å
shape_rg	18.82 Å
total_rg	19.88 Å
total_atoms	2151
n_residues	263
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	62.8 Å
rg_real	20.01 Å
rg_real_error	0.39 Å
i0_real	1.4910e+07
i0_real_error	1.7950e+05
rg_reciprocal	20.03 Å
i0_reciprocal	14910000.0000
total_estimate	0.8225
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.1 Å
skewness	0.191
kurtosis	-0.409
angular_range	— – 0.3950 Å⁻¹
current_alpha	0.0000
highest_alpha	3416000.0000
n_real_points	71
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.900; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Peroxisome proliferator-activated receptor gamma
formula_weight	31449.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2299

QLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDLY

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 polymer

description	PG11
formula_weight	2085.5 kDa
src_method	syn
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

XYTHKRLXSXXRLTXILCX

Entity 3 non-polymer

description	DI(HYDROXYETHYL)ETHER
formula_weight	106.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	148

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6. Citations (1)

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length_a	106.430 Å
length_b	106.430 Å
length_c	59.610 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 65
int_tables_number	170
crystal_system	—

resolution	1.700 Å
resolution_low	39.700 Å
r_factor	0.1747
r_work	0.1732
r_free	0.2149

fit	/app/data/saxs_computation/v8/9v8e/9v8e.fit
pddf	/app/data/pr_computation/v8/9v8e/9v8e.pr.out
profile	/app/data/saxs_computation/v8/9v8e/9v8e.dat

PPARgamma ligand-binding domain in complex with PG11

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 non-polymer

Entity 4 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)