SAXSdb — 9vft

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1. Structure Basics

entry_id	9vft
deposition_date	2025-06-11
title	Structure of mature CVA6 virus complexed with 3H7 Fab
keywords	coxsackievirus A6, KRM1, receptor, VIRUS; VIRUS
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	32.40 Å
rg_electron	31.64 Å
i0	181174000.00
molecular_weight	107840.0 kDa
excluded_volume	134810 Å³
envelope_volume	174090 Å³
shell_volume	45157 Å³
envelope_diameter	115.8 Å
shell_rg	39.07 Å
envelope_rg	32.17 Å
shape_rg	31.64 Å
total_rg	32.26 Å
total_atoms	7632
n_residues	1053
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	106.1 Å
rg_real	32.34 Å
rg_real_error	0.81 Å
i0_real	1.8120e+08
i0_real_error	2.7210e+06
rg_reciprocal	32.37 Å
i0_reciprocal	181200000.0000
total_estimate	0.8183
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	39.0 Å
skewness	0.301
kurtosis	-0.385
angular_range	— – 0.2450 Å⁻¹
current_alpha	0.0000
highest_alpha	36160000.0000
n_real_points	50
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.879; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (7)

Entity 1 polymer

description	VH
formula_weight	13671.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F
atom_count	7632

EVKLVESGGGLVKPGGSLKLSCAASGFAFSTYDMSWVRQTPEKRLEWVATISSGGSYTYYPDSVKGRFTISRDNARNTLYLQMSSLRSEDTALYYCARGGPYDYDGSFYTMDYWGQGTSVTVSS

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 2 polymer

description	VL
formula_weight	11801.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

DIQMTQSPSSLSASLGERVSLTCRASQDIGSRLNWLQQEPDGTIKRLIYATSSLDSGVPKRFSGSRSGSYYSLTISSLESEDFVDYYCLQYAGFPWTFGGGTKLEIK

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 3 polymer

description	Genome polyprotein
formula_weight	7503.2 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

MGAQVSTQKSGSHETRNVATEGSTINFTNINYYKDSYAASASRQDFAQDPAKFTRPVLDAIREAAAPLQ

Entity 4 polymer

description	Genome polyprotein
formula_weight	28138.6 kDa
ec_number	3.4.22.29,3.6.1.15,3.4.22.28,2.7.7.48
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

SPSVEACGYSDRVAQLTVGNSTITTQEAANIVLSYGEWPEYCPSTDATAVDKPTRPDVSVNRFYTLSTKSWKTESTGWYWKFPDVLNDTGVFGQNAQFHYLYRSGFCMHVQCNASKFHQGALLVAAIPEFVIAASSPATKPNSQGLYPDFAHTNPGKDGQEFRDPYVLDAGIPLSQALIFPHQWINLRTNNCATIIMPYINALPFDSALNHSNFGLVVIPISPLKYCNGATTEVPITLTIAPLNSEFSGLRQAIKQ

Entity 5 polymer

description	Genome polyprotein
formula_weight	26324.8 kDa
ec_number	3.4.22.29,3.6.1.15,3.4.22.28,2.7.7.48
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

GFPTELKPGTNQFLTTDDGTSPPILPGFEPTPLIHIPGEFTSLLDLCQVETILEVNNTTGTTGVSRLLIPVRAQNNVDQLCASFQVDPGRNGPWQSTMVGQICRYYTQWSGSLKVTFMFTGSFMATGKMLIAYTPPGSAQPTTREAAMLGTHIVWDFGLQSSVTLVIPWISNTHFRAVKTGGVYDYYATGIVTIWYQTNFVVPPDTPTEANIIALGAAQKNFTLKLCKDTDEIQQTAEYQ

Entity 6 polymer

description	Genome polyprotein
formula_weight	33568.4 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

NDPITNAVESAVSALADTTISRVTAANTAASTHSLGTGRVPALQAAETGASSNSSDENLIETRCVMNRNGVNEASVEHFYSRAGLVGVVEVKDSGTSLDGYTVWPIDVMGFVQQRRKLELSTYMRFDAEFTFVSNLNNSTTPGMLLQYMYVPPGAPKPDSRKSYQWQTATNPSVFAKLSDPPPQVSVPFMSPATAYQWFYDGYPTFGEHKQATNLQYGQCPNNMMGHFAIRTVSESTTGKNIHVRVYMRIKHVRAWVPRPLRSQAYMVKNYPTYSQTITNTATDRASITTTDYEGGVPASPQRTS

Entity 7 non-polymer

description	STEARIC ACID
formula_weight	284.5 kDa
src_method	syn
entity_count	1

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6. Citations (1)

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resolution	2.590 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.59 Å
resolution_method	—
num_particles	96512

fit	/app/data/saxs_computation/vf/9vft/9vft.fit
pddf	/app/data/pr_computation/vf/9vft/9vft.pr.out
profile	/app/data/saxs_computation/vf/9vft/9vft.dat

Structure of mature CVA6 virus complexed with 3H7 Fab

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Refinement

EM 3D

5. Entities & Polymer Info (7)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Entity 4 polymer

Polymer

Entity 5 polymer

Polymer

Entity 6 polymer

Polymer

Entity 7 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)