SAXSdb — 10ic

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1. Structure Basics

entry_id	10ic
deposition_date	2026-01-21
title	Rhesus rotavirus (consensus structure at 4.7 Angstrom resolution from cryo-ET)
keywords	Rotavirus, non-enveloped virus, virus, viral entry, tomography; 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	75.84 Å
rg_electron	75.58 Å
i0	18835800000.00
molecular_weight	1171600.0 kDa
excluded_volume	1465200 Å³
envelope_volume	2122300 Å³
shell_volume	221520 Å³
envelope_diameter	251.2 Å
shell_rg	83.98 Å
envelope_rg	73.78 Å
shape_rg	75.55 Å
total_rg	75.74 Å
total_atoms	162885
n_residues	10256
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	272.7 Å
rg_real	79.12 Å
rg_real_error	1.47 Å
i0_real	1.8860e+10
i0_real_error	3.8320e+08
rg_reciprocal	76.72 Å
i0_reciprocal	18880000000.0000
total_estimate	0.9024
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	103.9 Å
skewness	0.426
kurtosis	0.201
angular_range	— – 0.1050 Å⁻¹
current_alpha	1.0260
highest_alpha	1420000000.0000
n_real_points	22
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.770; Stabil: 0.878; Sysdev: 1.000; Positv: 1.000; Valcen: 0.961; Smooth: 0.846

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4. Crystallography & Experiment

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5. Entities & Polymer Info (7)

Entity 1 polymer

description	Outer capsid glycoprotein VP7
formula_weight	37136.5 kDa
src_method	man
entity_count	13

Polymer

type	polypeptide(L)
strand_id	0,Y,1,Z,P,Q,R,S,T,U,V,W,X
atom_count	162885

MYGIEYTTVLTFLISLILLNYILKSLTRMMDFIIYRFLFIVVILSPLLKAQNYGINLPITGSMDTAYANSTQEETFLTSTLCLYYPTEAATEINDNSWKDTLSQLFLTKGWPTGSVYFKEYTDIASFSVDPQLYCDYNVVLMKYDATLQLDMSELADLILNEWLCNPMDITLYYYQQTDEANKWISMGSSCTIKVCPLNTQTLGIGCLTTDTATFEEVATAEKLVITDVVDGVNHKLDVTTATCTIRNCKKLGPRENVAVIQVGGSDVLDITADPTTAPQTERMMRINWKKWWQVFYTVVDYVNQIIQAMSKRSRSLNSAAFYYRI

Source

organism	Simian rotavirus A strain RRV
ncbi_taxonomy_id	444185
host_organism	Chlorocebus aethiops

Entity 2 polymer

description	Inner capsid protein VP2
formula_weight	103426.0 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B

MAYRKRGARRETNLKQDDRMQEKEENKNVNTNSENKNATKPQLSEKVLSQKEEVITDNQEEIKIADEVKKSNKEESKQLLEVLKTKEEHQKEVQYEILQKTIPTFEPKESILKKLEDIKPEQVKKQTKLFRIFEPRQLPVYRANGEKELRNRWYWKLKRDTLPDGDYDVREYFLNLYDQVLTEMPDYLLLKDMAVENKNSRDAGKVVDSETAAICDAIFQDEETEGVVRRFIAEMRQRVQADRNVVNYPSILHPIDHAFNEYFLQHQLVEPLNNDIIFNYIPERIRNDVNYILNMDRNLPSTARYIRPNLLQDRLNLHDNFESLWDTITTSNYILARSVVPDLKELVSTEAQIQKMSQDLQLEALTIQSETQFLTGINSQAANDCFKTLIAAMLSQRTMSLDFVTTNYMSLISGMWLLTVVPNDMFIRESLVACQLAIINTIIYPAFGMQRMHYRNGDPQTPFQIAEQQIQNFQVANWLHFVNNNQFRQVVIDGVLNQVLNDNIRNGHVVNQLMEALMQLSRQQFPTMPVDYKRSIQRGILLLSNRLGQLVDLTRLLAYNYETLMACITMNMQHVQTLTTEKLQLTSVTSLCMLIGNATVIPSPQTLFHYYNVNVNFHSNYNERINDAVAIITAANRLNLYQKKMKSIVEDFLKRLQIFDISRVPDDQMYRLRDRLRLLPVEIRRLDIFNLILMNMEQIERASDKIAQGVIIAYRDMQLERDEMYGYVNIARNLDGFQQINLEELMRTGDYAQITNMLLNNQPVALVGALPFITDSSVISLVAKLDATVFAQIVKLRKVDTLKPILYKINSDSNDFYLVANYDWVPTSTTKVYKQIPQQFDFRASMHMLTSNLTFTVYSDLLAFVSADTVEPINAVAFDNMRIMNEL

Source

organism	Simian rotavirus A strain RRV
ncbi_taxonomy_id	444185
host_organism	Chlorocebus aethiops

Entity 3 polymer

description	Intermediate capsid protein VP6
formula_weight	44962.8 kDa
src_method	man
entity_count	13

Polymer

type	polypeptide(L)
strand_id	C,D,E,F,G,H,I,J,K,L,M,N,O

MDVLYSLSKTLKDARDKIVEGTLYSNVSDLIQQFNQMIITMNGNEFQTGGIGNLPIRNWNFDFGLLGTTLLNLDANYVETARNTIDYFVDFVDNVCMDEMVRESQRNGIAPQSDSLRKLSGIKFKRINFDNSSEYIENWNLQNRRQRTGFTFHKPNIFPYSASFTLNRSQPAHDNLMGTMWLNAGSEIQVAGFDYSCAINAPANIQQFEHIVQLRRVLTTATITLLPDAERFSFPRVINSADGATTWYFNPVILRPNNVEVEFLLNGQIINTYQARFGTIIARNFDTIRLSFQLMRPPNMTPAVAALFPNAQPFEHHATVGLTLRIESAVCESVLADASKTMLANVTSVRQEYAIPVGPVFPPGMNWTDLITNYSPSREDNLQRVFTVASIRSMLVK

Source

organism	Simian rotavirus A strain RRV
ncbi_taxonomy_id	444185
host_organism	Chlorocebus aethiops

Entity 4 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	13

Entity 5 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	52

Entity 6 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	18

Entity 7 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	5

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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	4.70 Å
resolution_method	—
num_particles	8565

fit	/app/data/saxs_computation/0i/10ic/10ic.fit
pddf	/app/data/pr_computation/0i/10ic/10ic.pr.out
profile	/app/data/saxs_computation/0i/10ic/10ic.dat

Rhesus rotavirus (consensus structure at 4.7 Angstrom resolution from cryo-ET)

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 (7)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 non-polymer

Entity 7 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)