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9pky

Alpha1/Beta Heteromeric Glycine receptor in the presence of 0.200 mM strychnine and 2000 nM ivermectin

Method: ELECTRON MICROSCOPY D_max: 128.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9pky
deposition_date	2025-07-14
title	Alpha1/Beta Heteromeric Glycine receptor in the presence of 0.200 mM strychnine and 2000 nM ivermectin
keywords	Ion Channel, Pentameric, Glycine, Receptor, TRANSPORT PROTEIN; TRANSPORT 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	39.39 Å
rg_electron	38.97 Å
i0	530875000.00
molecular_weight	202820.0 kDa
excluded_volume	259640 Å³
envelope_volume	339710 Å³
shell_volume	70981 Å³
envelope_diameter	135.3 Å
shell_rg	46.10 Å
envelope_rg	38.49 Å
shape_rg	38.99 Å
total_rg	39.31 Å
total_atoms	14301
n_residues	1698
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	128.4 Å
rg_real	39.28 Å
rg_real_error	0.84 Å
i0_real	5.3090e+08
i0_real_error	7.9320e+06
rg_reciprocal	39.35 Å
i0_reciprocal	530900000.0000
total_estimate	0.8755
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	48.1 Å
skewness	0.322
kurtosis	-0.282
angular_range	— – 0.2000 Å⁻¹
current_alpha	0.0000
highest_alpha	91660000.0000
n_real_points	41
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.839; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.995; Smooth: 0.865

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Glycine receptor, alpha 1
formula_weight	52537.6 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,D,C,B
atom_count	14301

MFALGIYLWETIVFFSLAASQQAAARKAASPMPPSEFLDKLMGKVSGYDARIRPNFKGPPVNVTCNIFINSFGSIAETTMDYRVNIFLRQQWNDPRLAYSEYPDDSLDLDPSMLDSIWKPDLFFANEKGANFHEVTTDNKLLRISKNGNVLYSIRITLVLACPMDLKNFPMDVQTCIMQLESFGYTMNDLIFEWDEKGAVQVADGLTLPQFILKEEKDLRYCTKHYNTGKFTCIEARFHLERQMGYYLIQMYIPSLLIVILSWVSFWINMDAAPARVGLGITTVLTMTTQSSGSRASLPKVSYVKAIDIWMAVCLLFVFSALLEYAAVNFIARQHKELLRFQRRRRHLKEDEAGDGRFSFAAYGMGPACLQAKDGMAIKGNNNNAPTSTNPPEKTVEEMRKLFISRAKRIDTVSRVAFPLVFLIFNIFYWITYKIIRSEDIHKQLVPRGSHHHHHHHH

Source

organism	Danio rerio
common_name	zebrafish
ncbi_taxonomy_id	7955
host_organism	Spodoptera aff. frugiperda 1 BOLD-2017

Entity 2 polymer

description	Glycine receptor beta subunit 2
formula_weight	65820.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

MKALKVIFMLLIICLWMEGGFTKEKSAKKWSHPQFEKGGGSGGGSGGGSWSHPQFEKGGGSGGGSGGGSWSHPQFEKGGGSGGGSGGGSWSHPQFEKENLYFQGEKSAKKGKKKGKQVYCPSQLSSEDLARVPANSTSNILNKLLITYDPRIRPNFKGIPVEDRVNIFINSFGSIQETTMDYRVNIFLRQRWNDPRLRLPQDFKSDSLTVDPKMFKCLWKPDLFFANEKSANFHDVTQENILLFIFRNGDVLISMRLSVTLSCPLDLTLFPMDTQRCKMQLESFGYTTDDLQFMWQSGDPVQMDEIALPQFDIKQEDIEYGNCTKYYAGTGYYTCVEVIFTLRRQVGFYMMGVYAPTLLIVVLSWLSFWINPDASAARVPLGILSVLSLSSECTSLASELPKVSYVKAIDIWLIACLLFGFASLVEYAVVQVMLNSPKLLEAERAKIATKEKAEGKTPAKNTINGMGSTPIHVSTLQVTETRCKKVCTSKSDLRTNDFSIVGSLPRDFELSNFDCYGKPIEVGSAFSKSQAKNNKKPPPPKPVIPSAAKRIDLYARALFPFSFLFFNVIYWSVYLENLYFQGTETSQVAPA

Source

organism	Danio rerio
common_name	zebrafish
ncbi_taxonomy_id	7955
host_organism	Spodoptera aff. frugiperda 1 BOLD-2017

Entity 3 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	6

Entity 4 non-polymer

description	STRYCHNINE
formula_weight	334.4 kDa
src_method	syn
entity_count	5

Entity 5 non-polymer

description	;(2aE,4E,5'S,6S,6'R,7S,8E,11R,13R,15S,17aR,20R,20aR,20bS)-6'-[(2S)-butan-2-yl]-20,20b-dihydroxy-5',6,8,19-tetramethyl-17 -oxo-3',4',5',6,6',10,11,14,15,17,17a,20,20a,20b-tetradecahydro-2H,7H-spiro[11,15-methanofuro[4,3,2-pq][2,6]benzodioxacy clooctadecine-13,2'-pyran]-7-yl 2,6-dideoxy-4-O-(2,6-dideoxy-3-O-methyl-alpha-L-arabino-hexopyranosyl)-3-O-methyl-alpha-L-arabino-hexopyranoside ;
formula_weight	875.1 kDa
src_method	syn
entity_count	5

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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	2.890 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.89 Å
resolution_method	—
num_particles	93904

fit	/app/data/saxs_computation/pk/9pky/9pky.fit
pddf	/app/data/pr_computation/pk/9pky/9pky.pr.out
profile	/app/data/saxs_computation/pk/9pky/9pky.dat

Alpha1/Beta Heteromeric Glycine receptor in the presence of 0.200 mM strychnine and 2000 nM ivermectin

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

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)