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9q3v

Cryo EM structure of elk ACE2 in complex with XBB 1.5 spike RBD

Method: ELECTRON MICROSCOPY D_max: 112.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9q3v
deposition_date	2025-08-19
title	Cryo EM structure of elk ACE2 in complex with XBB 1.5 spike RBD
keywords	SARS-CoV-2, Cervidae, ACE2 receptor, viral host interaction, host susceptibility, VIRAL PROTEIN; VIRAL 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	31.99 Å
rg_electron	31.60 Å
i0	133077000.00
molecular_weight	91896.0 kDa
excluded_volume	114830 Å³
envelope_volume	151230 Å³
shell_volume	41122 Å³
envelope_diameter	119.0 Å
shell_rg	37.58 Å
envelope_rg	31.65 Å
shape_rg	31.58 Å
total_rg	32.20 Å
total_atoms	6482
n_residues	789
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	112.4 Å
rg_real	32.11 Å
rg_real_error	1.08 Å
i0_real	1.3310e+08
i0_real_error	2.1440e+06
rg_reciprocal	32.06 Å
i0_reciprocal	133100000.0000
total_estimate	0.8438
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	38.2 Å
skewness	0.534
kurtosis	0.064
angular_range	— – 0.2500 Å⁻¹
current_alpha	0.0000
highest_alpha	31620000.0000
n_real_points	51
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.693; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.984; Smooth: 0.903

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Spike protein
formula_weight	25159.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B
atom_count	6482

RVQPTESIVRFPNITNLCPFHEVFNATTFASVYAWNRKRISNCVADYSVIYNFAPFFAFKCYGVSPTKLNDLCFTNVYADSFVIRGNEVSQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKPSGNYNYLYRLFRKSKLKPFERDISTEIYQAGNKPCNGVAGPNCYSPLQSYGFRPTYGVGHQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNF

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Cricetulus griseus

Entity 2 polymer

description	Angiotensin-converting enzyme 2
formula_weight	72442.5 kDa
ec_number	3.4.-.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

MTGSFWLLLSLVAVTAAQSTTEEQAKTFLENFNHEAEDLSYQSSLASWNYNTNITDENVQKMNEARAKWSAFYEEQSRMAKTYSLEEIQNLTLKRQLKALQQSGTSVLSAEKSKRLNTILNTMSTIYSTGKVLDPNTQECLALEPGLDDIMENSRDYNRRLWAWEGWRAEVGKQLRPLYEEYVVLENEMARANNYEDYGDYWRGDYEVTEAGDYDYSRDQLMKDVEHTFAEIKPLYEQLHAYVRAKLMDTYPSYISPTGCLPAHLLGDMWGRFWTNLYSLTVPFKHKPSIDVTEKMENQSWDAERIFKEAEKFFVSIGLPHMTQGFWDNSMLTEPGDGRKVVCHPTAWDLGKGDFRIKMCTKVTMDDFLTAHHEMGHIQYDMAYAAQPYLLRNGANEGFHEAVGEIMSLSAATPHYLKALGLLEPDFYEDNETEINFLLKQALTIVGTLPFTYMLEKWRWMVFKGEIPKEQWMQKWWEMKREIVGVVEPLPHDETYCDPACLFHVAEDYSFIRYYTRTIYQFQFHEALCKTAKHEGALFKCDISNSTEAGQRLLQMLSLGKSEPWTLALESIVGIKTMDVKPLLNYFEPLFTWLKEQNKNSFVGWSTEWTPYSDGGHHHHHH

Source

organism	Cervus canadensis
common_name	elk
ncbi_taxonomy_id	1574408
host_organism	Cricetulus griseus

Entity 3 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	4

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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	3.30 Å
resolution_method	—
num_particles	121345

fit	/app/data/saxs_computation/q3/9q3v/9q3v.fit
pddf	/app/data/pr_computation/q3/9q3v/9q3v.pr.out
profile	/app/data/saxs_computation/q3/9q3v/9q3v.dat

Cryo EM structure of elk ACE2 in complex with XBB 1.5 spike RBD

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

EM 3D

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)