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9r0m

Cryo-EM structure of rat SLCO2A1 bound to prostaglandin E2.

Method: ELECTRON MICROSCOPY D_max: 92.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9r0m
deposition_date	2025-04-24
title	Cryo-EM structure of rat SLCO2A1 bound to prostaglandin E2.
keywords	OATP2A1, plasma membrane localized, prostaglandin transporter, PGT, major facilitator superfamily., MEMBRANE PROTEIN; MEMBRANE PROTEIN
method	ELECTRON MICROSCOPY

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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	28.51 Å
rg_electron	27.05 Å
i0	52492600.00
molecular_weight	61009.0 kDa
excluded_volume	78265 Å³
envelope_volume	98265 Å³
shell_volume	30713 Å³
envelope_diameter	92.9 Å
shell_rg	34.05 Å
envelope_rg	27.36 Å
shape_rg	27.03 Å
total_rg	27.94 Å
total_atoms	4291
n_residues	550
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	92.9 Å
rg_real	28.56 Å
rg_real_error	0.65 Å
i0_real	5.2490e+07
i0_real_error	7.7870e+05
rg_reciprocal	28.55 Å
i0_reciprocal	52490000.0000
total_estimate	0.8926
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	33.2 Å
skewness	0.358
kurtosis	-0.378
angular_range	— – 0.2800 Å⁻¹
current_alpha	0.0000
highest_alpha	7057000.0000
n_real_points	57
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.918; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.965; Smooth: 0.879

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Solute carrier organic anion transporter family member 2A1
formula_weight	72615.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4291

MGLLLKPGARQGSGTSSVPDRRCPRSVFSNIKVFVLCHGLLQLCQLLYSAYFKSSLTTIEKRFGLSSSSSGLISSLNEISNATLIIFISYFGSRVNRPRMIGIGGLLLAAGAFVLTLPHFLSEPYQYTSTTDGNRSSFQTDLCQKHFGALPPSKCHSTVPDTHKETSSLWGLMVVAQLLAGIGTVPIQPFGISYVDDFAEPTNSPLYISILFAIAVFGPAFGYLLGSVMLRIFVDYGRVDTATVNLSPGDPRWIGAWWLGLLISSGFLIVTSLPFFFFPRAMSRGAERSVTAEETMQTEEDKSRGSLMDFIKRFPRIFLRLLMNPLFMLVVLSQCTFSSVIAGLSTFLNKFLEKQYGATAAYANFLIGAVNLPAAALGMLFGGILMKRFVFPLQTIPRVAATIITISMILCVPLFFMGCSTSAVAEVYPPSTSSSIHPQQPPACRRDCSCPDSFFHPVCGDNGVEYVSPCHAGCSSTNTSSEASKEPIYLNCSCVSGGSASAKTGSCPTSCAQLLLPSIFLISFAALIACISHNPLYMMVLRVVNQDEKSFAIGVQFLLMRLLAWLPAPSLYGLLIDSSCVRWNYLCSGRRGACAYYDNDALRNRYLGLQMVYKALGTLLLFFISWRMKKNREYSLQENTSGLIGLNDIFEAQKIEWHELEGG

Source

organism	Rattus norvegicus
common_name	Norway rat
ncbi_taxonomy_id	10116
host_organism	Homo sapiens

Entity 2 non-polymer

description	(Z)-7-[(1R,2R,3R)-3-hydroxy-2-[(E,3S)-3-hydroxyoct-1-enyl]-5-oxo-cyclopentyl]hept-5-enoic acid
formula_weight	352.5 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	CHOLESTEROL HEMISUCCINATE
formula_weight	486.7 kDa
src_method	syn
entity_count	1

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	3.200 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.20 Å
resolution_method	—
num_particles	327674

fit	/app/data/saxs_computation/r0/9r0m/9r0m.fit
pddf	/app/data/pr_computation/r0/9r0m/9r0m.pr.out
profile	/app/data/saxs_computation/r0/9r0m/9r0m.dat

Cryo-EM structure of rat SLCO2A1 bound to prostaglandin E2.

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

EM 3D