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9uvy

Cryo-EM structure of Vasopressin receptor 2 (V2R)-ARK1 with tolvaptan

Method: ELECTRON MICROSCOPY D_max: 113.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uvy
deposition_date	2025-05-11
title	Cryo-EM structure of Vasopressin receptor 2 (V2R)-ARK1 with tolvaptan
keywords	GPCR, V2R, vasopressin, tolvaptan, ARK1, 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	33.79 Å
rg_electron	33.98 Å
i0	163829000.00
molecular_weight	69027.0 kDa
excluded_volume	67044 Å³
envelope_volume	120890 Å³
shell_volume	31764 Å³
envelope_diameter	119.4 Å
shell_rg	37.44 Å
envelope_rg	34.24 Å
shape_rg	33.97 Å
total_rg	34.21 Å
total_atoms	5245
n_residues	653
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	113.5 Å
rg_real	34.04 Å
rg_real_error	0.94 Å
i0_real	1.6380e+08
i0_real_error	2.8470e+06
rg_reciprocal	33.89 Å
i0_reciprocal	163800000.0000
total_estimate	0.8303
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	29.0 Å
skewness	0.496
kurtosis	-0.420
angular_range	— – 0.2350 Å⁻¹
current_alpha	0.0000
highest_alpha	20880000.0000
n_real_points	48
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.808; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.664; Smooth: 0.701

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Vasopressin V2 receptor,ARK1
formula_weight	86251.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	5247

MKTIIALSYIFCLVFADYKDDDDAENLYFQGMLMASTTSAVPGHPSLPSLPSNSSQERPLDTRDPLLARAELALLSIVFVAVALSNGLVLAALARRGRRGHWAPIHVFIGHLCLADLAVALFQVLPQLAWKATDRFRGPDALCRAVKYLQMVGMYASSYMILAMTLDRHRAICRPMLAYRHGSGAHWNRPVLVAWAFSLLLSLPQLFIFAQRNVEGGSGVTDCWACFAEPWGRRTYVTWIALMVFVAPTLGIAACQVLIFREIHASLELRRLLREQGEKLLKLAEESEKKIKEAIEKGEDVVKVATEETHKLIKAIWESSFEVARLLGVPEEVLEKFRKELEKLLEESKKRIEEAIKKGEDVLKVVEEEAKKLREHSEKFLETARSLGVDPRPLERLARIVRVVEESLVRIVKAIKEGEDVEKVLLSESTLIKSSIILSSGLDPREAYEELLATYEETRDSELVKEFVELVRELLRLRGEPEELVRQLDKLIEAIDRMEKAVAEGEDTLPLFLELAREILKALSDVARILAEREGLDVELIDEIVDTASRLLEEVIKKAKEGEDLDEEEEKVKKELEELKKRTEERARALGQDVELVRTIVDSLSTLLSEIVEGIKRVKEGEDPLEVLARVVLTATLQILELVRTAERRRRERVAKTVRMTLVIVVVYVLCWAPFFLVQLWAAWDPEAPLEGAPFVLLMLLASLNSCTNPWIYASFSSSVSSELRSLLCCARGRTPPSLGPQDESCTTASSSLAKDTSSLEVLFQ

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 non-polymer

description	(R)-Tolvaptan
formula_weight	448.9 kDa
src_method	syn
entity_count	1

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	2

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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	2.980 Å
resolution_low	2.980 Å
r_factor	—
r_work	0.3948
r_free	—

resolution	2.98 Å
resolution_method	—
num_particles	201250

fit	/app/data/saxs_computation/uv/9uvy/9uvy.fit
pddf	/app/data/pr_computation/uv/9uvy/9uvy.pr.out
profile	/app/data/saxs_computation/uv/9uvy/9uvy.dat

Cryo-EM structure of Vasopressin receptor 2 (V2R)-ARK1 with tolvaptan

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