← Back to search

9qhp

Cryo-EM structure of mouse TRPM3 alpha 2 in complex with antagonist Isosakuranetin

Method: ELECTRON MICROSCOPY D_max: 156.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9qhp
deposition_date	2025-03-16
title	Cryo-EM structure of mouse TRPM3 alpha 2 in complex with antagonist Isosakuranetin
keywords	Ca2+ channel, Isosakuranetin-bound Closed conformation, MEMBRANE PROTEIN; MEMBRANE PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	51.73 Å
rg_electron	51.59 Å
i0	2313960000.00
molecular_weight	431180.0 kDa
excluded_volume	550630 Å³
envelope_volume	796500 Å³
shell_volume	122290 Å³
envelope_diameter	160.7 Å
shell_rg	61.23 Å
envelope_rg	49.57 Å
shape_rg	51.72 Å
total_rg	51.40 Å
total_atoms	61152
n_residues	3700
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

▼

3. P(r) Analysis (GNOM)

dmax	156.7 Å
rg_real	51.43 Å
rg_real_error	1.05 Å
i0_real	2.3140e+09
i0_real_error	4.3180e+07
rg_reciprocal	51.97 Å
i0_reciprocal	2316000000.0000
total_estimate	0.8701
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	67.9 Å
skewness	0.050
kurtosis	-0.460
angular_range	— – 0.1500 Å⁻¹
current_alpha	0.0000
highest_alpha	237200000.0000
n_real_points	31
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.914; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.946; Smooth: 0.621

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	MKIAA1616 protein
formula_weight	161963.2 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	61152

MSGKKWRDAGELERGCSDREDSAESRRRSRSASRGRFAESWKRLSSKQGSTKRSGLPAQQTPAQKSWIERAFYKRECVHIIPSTKDPHRCCCGRLIGQHVGLTPSISVLQNEKNESRLSRNDIQSEKWSISKHTQLSPTDAFGTIEFQGGGHSNKAMYVRVSFDTKPDLLLHLMTKEWQLELPKLLISVHGGLQNFELQPKLKQVFGKGLIKAAMTTGAWIFTGGVNTGVIRHVGDALKDHASKSRGKICTIGIAPWGIVENQEDLIGRDVVRPYQTMSNPMSKLTVLNSMHSHFILADNGTTGKYGAEVKLRRQLEKHISLQKINTRIGQGVPVVALIVEGGPNVISIVLEYLRDTPPVPVVVCDGSGRASDILAFGHKYSEEGGLINESLRDQLLVTIQKTFTYTRTQAQHLFIILMECMKKKELITVFRMGSEGHQDIDLAILTALLKGANASAPDQLSLALAWNRVDIARSQIFIYGQQWPVGSLEQAMLDALVLDRVDFVKLLIENGVSMHRFLTISRLEELYNTRHGPSNTLYHLVRDVKKGNLPPDYRISLIDIGLVIEYLMGGAYRCNYTRKRFRTLYHNLFGPKRPKALKLLGMEDDIPLRRGRKTTKKREEEVDIDLDDPEINHFPFPFHELMVWAVLMKRQKMALFFWQHGEEAMAKALVACKLCKAMAHEASENDMVDDISQELNHNSRDFGQLAVELLDQSYKQDEQLAMKLLTYELKNWSNATCLQLAVAAKHRDFIAHTCSQMLLTDMWMGRLRMRKNSGLKVILGILLPPSILSLEFKNKDDMPYMTQAQEIHLQEKEPEEPEKPTKEKDEEDMELTAMLGRSNGESSRKKDEEEVQSRHRLIPVGRKIYEFYNAPIVKFWFYTLAYIGYLMLFNYIVLVKMERWPSTQEWIVISYIFTLGIEKMREILMSEPGKLLQKVKVWLQEYWNVTDLIAILLFSVGMILRLQDQPFRSDGRVIYCVNIIYWYIRLLDIFGVNKYLGPYVMMIGKMMIDMMYFVIIMLVVLMSFGVARQAILFPNEEPSWKLAKNIFYMPYWMIYGEVFADQIDPPCGQNETREDGKTIQLPPCKTGAWIVPAIMACYLLVANILLVNLLIAVFNNTFFEVKSISNQVWKFQRYQLIMTFHERPVLPPPLIIFSHMTMIFQHVCCRWRKHESDQDERDYGLKLFITDDELKKVHDFEEQCIEEYFREKDDRFNSSNDERIRVTSERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERLTGLERAESNKIRSRTSSDCTDAAYIVRQSSFNSQEGNTFKLQESIDPAGEETISPTSPTLMPRMRSHSFYSVALEVLFQGPQGTEQKLISEEDLRGASMDEKTTGWRGGHVVEGLAGELEQLRARLEHHPQGQREP

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 2 non-polymer

description	(2~{R})-2-(4-methoxyphenyl)-5,7-bis(oxidanyl)-2,3-dihydrochromen-4-one
formula_weight	286.3 kDa
src_method	syn
entity_count	4

Entity 3 non-polymer

description	(25R)-14beta,17beta-spirost-5-en-3beta-ol
formula_weight	414.6 kDa
src_method	syn
entity_count	8

▶

6. Citations (1)

▶

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	2.350 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.35 Å
resolution_method	—
num_particles	281282

fit	/app/data/saxs_computation/qh/9qhp/9qhp.fit
pddf	/app/data/pr_computation/qh/9qhp/9qhp.pr.out
profile	/app/data/saxs_computation/qh/9qhp/9qhp.dat

Cryo-EM structure of mouse TRPM3 alpha 2 in complex with antagonist Isosakuranetin

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