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9rcs

Cardioderma bat coronavirus KY43 receptor binding domain in complex with human CEACAM6

Method: X-RAY DIFFRACTION D_max: 166.7 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9rcs
deposition_date	2025-05-29
title	Cardioderma bat coronavirus KY43 receptor binding domain in complex with human CEACAM6
keywords	RECEPTOR, RECEPTOR BINDING DOMAIN, VIRUS ENTRY, VIRUS:HOST INTERACTION, VIRAL PROTEIN; VIRAL PROTEIN
method	X-RAY DIFFRACTION

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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	44.29 Å
rg_electron	46.12 Å
i0	36032100.00
molecular_weight	47489.0 kDa
excluded_volume	59120 Å³
envelope_volume	91287 Å³
shell_volume	20327 Å³
envelope_diameter	165.2 Å
shell_rg	37.96 Å
envelope_rg	47.55 Å
shape_rg	46.06 Å
total_rg	45.77 Å
total_atoms	3343
n_residues	413
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	166.7 Å
rg_real	45.50 Å
rg_real_error	2.87 Å
i0_real	3.6030e+07
i0_real_error	7.3920e+05
rg_reciprocal	44.30 Å
i0_reciprocal	35980000.0000
total_estimate	0.5533
solution_quality	REASONABLE a REASONABLE solution
n_peaks	4
r_peak_primary	23.2 Å
skewness	0.643
kurtosis	-0.447
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	1048000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.058; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.018; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Cell adhesion molecule CEACAM6
formula_weight	32685.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3343

KLTIESTPFNVAEGKEVLLLAHNLPQNRIGYSWYKGERVDGNSLIVGYVIGTQQATPGPAYSGRETIYPNASLLIQNVTQNDTGFYTLQVIKSDLVNEEATGQFHVYPELPKPSISSNNSNPVEDKDAVAFTCEPEVQNTTYLWWVNGQSLPVSPRLQLSNGNMTLTLLSVKRNDAGSYECEIQNPASANRSDPVTLNVLYGPDVPTISPSKANYRPGENLNLSCHAASNPPAQYSWFINGTFQQSTQELFIPNITVNNSGSYMCQAHNSATGLNRTTVTMITVSGSAPVLSKLEVLFQ

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Spike protein
formula_weight	17235.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

VALPYHATHMFVNFTMWRGSTDNDSYLHINGGIEPFCVNTTQFTTTFEQLNKTFTSVEAKLVNGDCPFTLSSLNNYLSFESICFSVQPVGASCTISIHIGWMTYFIPWRDIYVTYKHGSAITGVTKASTGINDIFEAQKIEWHEKHHHHHH

Source

organism	Cardioderma bat coronavirus
ncbi_taxonomy_id	3119326
host_organism	Homo sapiens

Entity 3 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	1

Entity 4 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	8

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6. Citations (1)

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length_a	70.010 Å
length_b	78.795 Å
length_c	82.339 Å
angle_alpha	90.00 °
angle_beta	88.64 °
angle_gamma	90.00 °
z_pdb	2

space_group	P 1 21 1
int_tables_number	4
crystal_system	monoclinic

resolution	3.012 Å
resolution_low	82.320 Å
r_factor	0.2584
r_work	0.2557
r_free	0.3168

fit	/app/data/saxs_computation/rc/9rcs/9rcs.fit
pddf	/app/data/pr_computation/rc/9rcs/9rcs.pr.out
profile	/app/data/saxs_computation/rc/9rcs/9rcs.dat

Cardioderma bat coronavirus KY43 receptor binding domain in complex with human CEACAM6

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

Diffraction

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 branched

Entity 4 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)