SAXSdb — 9rig

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1. Structure Basics

entry_id	9rig
deposition_date	2025-06-11
title	EV-A71 (genotype B2) in complex with 16-2-9D Fab
keywords	Hand-foot-and-mouth disease, HFMD, enterovirus 71 (EV-A71), antibody, 16-2-9D, 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	33.42 Å
rg_electron	32.93 Å
i0	218245000.00
molecular_weight	118530.0 kDa
excluded_volume	148130 Å³
envelope_volume	184830 Å³
shell_volume	46477 Å³
envelope_diameter	119.0 Å
shell_rg	39.82 Å
envelope_rg	33.41 Å
shape_rg	32.89 Å
total_rg	33.56 Å
total_atoms	14706
n_residues	1082
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	111.2 Å
rg_real	33.44 Å
rg_real_error	0.82 Å
i0_real	2.1820e+08
i0_real_error	3.7140e+06
rg_reciprocal	33.43 Å
i0_reciprocal	218200000.0000
total_estimate	0.8796
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	37.9 Å
skewness	0.395
kurtosis	-0.304
angular_range	— – 0.2350 Å⁻¹
current_alpha	0.0000
highest_alpha	42720000.0000
n_real_points	48
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.852; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.977; Smooth: 0.898

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4. Crystallography & Experiment

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5. Entities & Polymer Info (7)

Entity 1 polymer

description	Genome polyprotein
formula_weight	32781.8 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	A
atom_count	14706

GDRVADMIESSIGNSVSRALTQALPAPTGQNTQVSSHRLDTGEVPALQAAEIGASSNTSDESMIETRCVLNSHSTAETTLDSFFSRAGLVGEIDLPLEGTTNPNGYANWDIDITGYAQMRRKVELFTYMRFDAEFTFVACTPTGQVVPQLLQYMFVPPGAPKPESRESLAWQTATNPSVFVKLTDPPAQVSVPFMSPASAYQWFYDGYPTFGEHKQEKDLEYGACPNNMMGTFSVRTVGSSKSKYALVVRIYMRMKHVRAWIPRPMRNQNYLFKANPNYAGDSIKPTGTSRNAITTL

Entity 2 polymer

description	Genome polyprotein
formula_weight	26918.3 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

SDRVAQLTIGNSTITTQEAANIIVGYGEWPSYCSDDDATAVDKPTRPDVSVNRFYTLDTKLWEKSSKGWYWKFPDVLTETGVFGQNAQFHYLYRSGFCIHVQCNASKFHQGALLVAILPEYVIGTVAGGTGTEDSHPPYIQTQPGADGFELQHPYVLDAGIPISQLTVCPHQWINLRTNNCATIIVPYMNTLPFDSALNHCNFGLLVVPISPLDFDQGATPVIPITITLAPMCSEFAGLRQAVTQ

Entity 3 polymer

description	Genome polyprotein
formula_weight	26540.3 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

GFPTELKPGTNQFLTTDDGVSAPILPNFHPTPCIHIPGEVRNLLELCQVETILEVNNVPTNATSLMERLRFPVSAQAGKGELCAVFRADPGRDGPWQSTMLGQLCGYYTQWSGSLEVTFMFTGSFMATGKMLIAYTPPGGPLPKDRATAMLGTHVIWDFGLQSSVTLVIPWISNTHYRAHARDGVFDYYTTGLVSIWYQTNYVVPIGAPNTAYIIALAAAQKNFTMKLCKDTSHILQTASIQ

Entity 4 polymer

description	16-2-9D heavy chain
formula_weight	25617.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

QVQLQESGPGLVKPSETLSLTCSVSGVSISSRTYYWGWIRQPPGKGLEWIGTIYYSGITHYSPSLKSPVTISVDKSKNQFSLELTSVTAADTAMYYCARHSSPQCSPTSCYEGPYTRDWYVDYWGQGVLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDK

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 5 polymer

description	16-2-9D light chain
formula_weight	22678.0 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

QSALTQPPSASGTPGQRVTISCSGSSSNIRSNTVNWYQKLPGAAPTLLIYTNNQRPSGVPDRFSGSKSGTSASLAISGLQSEDEADYFCAAWDGSLNAVVFGGGTKLTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 6 polymer

description	Capsid protein
formula_weight	7501.2 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

MGSQVSTQRSGSHENSNSATEGSTINYTTINYYKDSYAATAGKQSLKQDPDKFANPVKDIFTEMAAPLK

Entity 7 non-polymer

description	SPHINGOSINE
formula_weight	299.5 kDa
src_method	syn
entity_count	1

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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	3.700 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.70 Å
resolution_method	—
num_particles	3668

fit	/app/data/saxs_computation/ri/9rig/9rig.fit
pddf	/app/data/pr_computation/ri/9rig/9rig.pr.out
profile	/app/data/saxs_computation/ri/9rig/9rig.dat

EV-A71 (genotype B2) in complex with 16-2-9D Fab

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

EM 3D

5. Entities & Polymer Info (7)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

Entity 6 polymer

Polymer

Entity 7 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)