← Back to search

9zq1

CNGA1 channel intermediate state in nanodisc with diC8-PIP2 cGMP-bound

Method: ELECTRON MICROSCOPY D_max: 122.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9zq1
deposition_date	2025-12-17
title	CNGA1 channel intermediate state in nanodisc with diC8-PIP2 cGMP-bound
keywords	Cyclic nucleotide-gated channel, Rod photoreceptor, CNGA1, Ion channel, TRANSPORT PROTEIN; TRANSPORT PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	40.48 Å
rg_electron	39.74 Å
i0	636206000.00
molecular_weight	230530.0 kDa
excluded_volume	298130 Å³
envelope_volume	380200 Å³
shell_volume	76489 Å³
envelope_diameter	123.0 Å
shell_rg	48.18 Å
envelope_rg	38.92 Å
shape_rg	39.74 Å
total_rg	40.20 Å
total_atoms	16192
n_residues	1796
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	122.4 Å
rg_real	40.26 Å
rg_real_error	1.07 Å
i0_real	6.3620e+08
i0_real_error	1.1870e+07
rg_reciprocal	40.48 Å
i0_reciprocal	636300000.0000
total_estimate	0.8857
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	53.4 Å
skewness	0.102
kurtosis	-0.475
angular_range	— – 0.1950 Å⁻¹
current_alpha	0.0000
highest_alpha	52200000.0000
n_real_points	40
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.911; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.967; Smooth: 0.817

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (6)

Entity 1 polymer

description	Cyclic nucleotide-gated channel alpha-1
formula_weight	64519.2 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	16192

DYKDDDDKGGSASKDKKEEEKKEVVVIDPSGNTYYNWLFCITLPVMYNWTMVIARACFDELQSDYLEYWLILDYVSDIVYLIDMFVRTRTGYLEQGLLVKEELKLINKYKSNLQFKLDVLSLIPTDLLYFKLGWNYPEIRLNRLLRFSRMFEFFQRTETRTNYPNIFRISNLVMYIVIIIHWNACVFYSISKAIGFGNDTWVYPDINDPEFGRLARKYVYSLYWSTLTLTTIGETPPPVRDSEYVFVVVDFLIGVLIFATIVGNIGSMISNMNAARAEFQARIDAIKQYMHFRNVSKDMEKRVIKWFDYLWTNKKTVDEKEVLKYLPDKLRAEIAINVHLDTLKKVRIFADCEAGLLVELVLKLQPQVYSPGDYICKKGDIGREMYIIKEGKLAVVADDGVTQFVVLSDGSYFGEISILNIKGSKAGNRRTANIKSIGYSDLFCLSKDDLMEALTEYPDAKTMLEEKGKQILMKDGLLDLNIANAGSDPKDLEEKVTRMEGSVDLLQTRFARILAEYESMQQKLKQRLTKVEKFLKPLIDTEFSSIEGPGAESGPIDST

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 non-polymer

description	CYCLIC GUANOSINE MONOPHOSPHATE
formula_weight	345.2 kDa
src_method	syn
entity_count	4

Entity 3 non-polymer

description	CHOLESTEROL
formula_weight	386.7 kDa
src_method	syn
entity_count	4

Entity 4 non-polymer

description	1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
formula_weight	787.1 kDa
src_method	syn
entity_count	28

Entity 5 non-polymer

description	;[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate ;
formula_weight	746.6 kDa
src_method	syn
entity_count	4

Entity 6 non-polymer

description	POTASSIUM ION
formula_weight	39.1 kDa
src_method	syn
entity_count	5

▶

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	2.220 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.22 Å
resolution_method	—
num_particles	332474

fit	/app/data/saxs_computation/zq/9zq1/9zq1.fit
pddf	/app/data/pr_computation/zq/9zq1/9zq1.pr.out
profile	/app/data/saxs_computation/zq/9zq1/9zq1.dat