HDAg complex with 86-pRNA, Body1

Method: ELECTRON MICROSCOPY D_max: 121.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9prc
deposition_date	2025-07-23
title	HDAg complex with 86-pRNA, Body1
keywords	HDV, HDAg, RNP, RNA, 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	39.36 Å
rg_electron	38.30 Å
i0	255164000.00
molecular_weight	95199.0 kDa
excluded_volume	104970 Å³
envelope_volume	188890 Å³
shell_volume	43041 Å³
envelope_diameter	120.0 Å
shell_rg	42.66 Å
envelope_rg	36.30 Å
shape_rg	38.25 Å
total_rg	38.65 Å
total_atoms	6493
n_residues	553
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	121.6 Å
rg_real	39.16 Å
rg_real_error	1.23 Å
i0_real	2.5520e+08
i0_real_error	4.6680e+06
rg_reciprocal	39.29 Å
i0_reciprocal	255200000.0000
total_estimate	0.8668
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	51.7 Å
skewness	0.100
kurtosis	-0.426
angular_range	— – 0.2000 Å⁻¹
current_alpha	0.0000
highest_alpha	6005000.0000
n_real_points	41
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.843; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.744

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

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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	3.500 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.50 Å
resolution_method	—
num_particles	298422

description	Small delta antigen
formula_weight	21854.6 kDa
src_method	man
entity_count	8

HDAg complex with 86-pRNA, Body1

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 (2)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Hepatitis delta virus
ncbi_taxonomy_id	12475
host_organism	Escherichia coli

description	Palindromic RNA
formula_weight	17581.4 kDa
src_method	syn
entity_count	4

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

type	polypeptide(L)
strand_id	A,B,C,D,E,F,G,H
atom_count	6493

type	polyribonucleotide
strand_id	J,K,M,P