SAXSdb — 9r6t

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1. Structure Basics

entry_id	9r6t
deposition_date	2025-05-13
title	Prefusion stabilized spike glycoprotein of equine coronavirus.
keywords	fusion glycoprotein, membrane protein, 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	51.10 Å
rg_electron	50.64 Å
i0	2486430000.00
molecular_weight	413590.0 kDa
excluded_volume	515490 Å³
envelope_volume	730820 Å³
shell_volume	116000 Å³
envelope_diameter	157.4 Å
shell_rg	57.26 Å
envelope_rg	50.00 Å
shape_rg	50.60 Å
total_rg	51.00 Å
total_atoms	29034
n_residues	3633
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	159.7 Å
rg_real	50.94 Å
rg_real_error	1.09 Å
i0_real	2.4860e+09
i0_real_error	4.4010e+07
rg_reciprocal	51.22 Å
i0_reciprocal	2487000000.0000
total_estimate	0.8744
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	61.8 Å
skewness	0.194
kurtosis	-0.537
angular_range	— – 0.1550 Å⁻¹
current_alpha	0.0000
highest_alpha	373600000.0000
n_real_points	32
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.933; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.981; Smooth: 0.583

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Spike glycoprotein
formula_weight	143631.4 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	29034

MVLLLLFFLPTAFAVVGDVKCTTIGVNDVNTGAPVISTETVDVTNGLGTYYVLDRVYLNTTLLLNGYYPTSGANYRNLALKASELLSTLWYKPPFLSEFNDGVFAKVKNTKVTKNGIVYSEFPTMVIGTTFVNTSYTVVVQPRTTVVNSKLQGLLEITICQYSMCEYPNTVCNSGIGSPRKELWHYEKAVASCLYRRNFTYDVNSDWLYFHFYQQGGTFYAYYTDSGFITTFLFNIYLGTSLSHYYVMPLSCSGKLDLQYWVTPLTNRQFLLVFNQDGIIYNAVDCASDYMSEIKCKTQNVKPSTGVYDLTGYTVQPIADVYRRIPNLPDCNMEDWLSAPTVASPLNWERRTFSNCNFNMSSLLSFIQADSFSCSNIDAAKLYGMCFGSVTIDKFAIPNSRKVDLQLGNRGYLQRFNYRIDTTATSCQLYYSLGADNVTVTRSNPSAWNRRYGFNDTMFKPQPAGFFTNHDVVYSKQCFKVPNTYCPCKNNGATCVGNGVSAGVSGTTTGSGTCPVGTSYRTCFNPIQCACTCDPEPINAILTSGPRACPQVKSLVGLGEHCSGLGIHEDFCGGSPCSCPANAFMAWSVDSCLQDGRCNIFSNLILNGVNSGATCSTDLQRSNTEIVVGVCVKYDLYGITGQGIFIEVNATYYNSWQNLLYDSNGNLYGFRDYLTNRTFMIRSCYSGRVSAAYHSDASEPALLYRNLKCNYVFNNTIAREGNPINYFDSYLGCIVNADNSTSSVVDTCVLTMGSGYCVDYSTASRAGGSPSTGYRLTNFEPFNVRLVNDSVEPVGGLYEIQIPSEFTIGNFEEFIQTNSPKVTIDCAAFVCGDYAACREQLVGYGSFCDNIEAILTEVNDLLDTTQFQVANSLMNGVTLSSRLKTGINFNVDDINFSSVLGCVGSDCNTVSSRSAIEDLLFNKVRLSDVGFVEAYNNCTGGAEIRDLLCVQTFNGIKVLPPVLSENQISGYTLAATSAQLFPPWTAAAGIPFYLNVQYRINGLGVTMDVLSQNQKMIANAFNNALGAIQNGFDPTNSALVKIQAVVNANAEALNNLLQQLSNRFGAISSSLQEILSRLDPPEAQAQIDKLINGRLTALNAFVSQQLSDTTLVKFSASQAIEKVNECVKSQSLRVNFCGNGNHIISLVQNAPYGLYFIHFNYVPTKYVTAKVSPGLCIAGDRGIAPKSGYFVNVNNMWMFTGSGYYYPEPITENNVVVMSTCAVNYTKAPDVMLNILIPNLSDFKEELDQWFKNQTSVAPDLSLDYINVTFLNLQDEMNRLQESIKVLNQSYINLKDKGTYEY

Source

organism	Equine coronavirus
ncbi_taxonomy_id	136187
host_organism	Homo sapiens

Entity 2 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	27

Entity 3 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	12

Entity 4 non-polymer

description	Sapienic acid
formula_weight	254.4 kDa
src_method	syn
entity_count	3

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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	2.76 Å
resolution_method	—
num_particles	397300

fit	/app/data/saxs_computation/r6/9r6t/9r6t.fit
pddf	/app/data/pr_computation/r6/9r6t/9r6t.pr.out
profile	/app/data/saxs_computation/r6/9r6t/9r6t.dat

Prefusion stabilized spike glycoprotein of equine coronavirus.

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