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9urm

HRV14 3C in complex with single chain antibody YDF and cloverleafRNA-conformation1 splitRNA

Method: ELECTRON MICROSCOPY D_max: 114.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9urm
deposition_date	2025-04-30
title	HRV14 3C in complex with single chain antibody YDF and cloverleafRNA-conformation1 splitRNA
keywords	cloverleafRNA, 3c, complex, RNA BINDING PROTEIN/IMMUNE SYSTEM/RNA, RNA BINDING PROTEIN-IMMUNE SYSTEM-RNA complex; RNA BINDING PROTEIN/IMMUNE SYSTEM/RNA
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	34.18 Å
rg_electron	33.10 Å
i0	119140000.00
molecular_weight	68685.0 kDa
excluded_volume	78074 Å³
envelope_volume	120640 Å³
shell_volume	32063 Å³
envelope_diameter	118.0 Å
shell_rg	37.36 Å
envelope_rg	33.06 Å
shape_rg	32.98 Å
total_rg	33.69 Å
total_atoms	4722
n_residues	486
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	114.6 Å
rg_real	34.33 Å
rg_real_error	1.30 Å
i0_real	1.1910e+08
i0_real_error	1.9640e+06
rg_reciprocal	34.24 Å
i0_reciprocal	119100000.0000
total_estimate	0.8789
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	34.9 Å
skewness	0.397
kurtosis	-0.461
angular_range	— – 0.2300 Å⁻¹
current_alpha	0.0000
highest_alpha	5610000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.890; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.928; Smooth: 0.826

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Protease 3C
formula_weight	19836.7 kDa
ec_number	3.4.22.28
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4722

PNTEFALSLLRKNIMTITTSKGEFTGLGIHDRVCVIPTHAQPGDDVLVNGQKIRVKDKYKLVDPENINLELTVLTLDRNEKFRDIRGFISEDLEGVDATLVVHSNNFTNTILEVGPVTMAGLINLSSTPTNRMIRYDYATKTGQCGGVLCATGKIFGIHVGGNGRQGFSAQLKKQYFVEK

Source

organism	rhinovirus B14
ncbi_taxonomy_id	12131
host_organism	Escherichia coli BL21

Entity 2 polymer

description	YDF H chain
formula_weight	13833.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

QVQLLQSGGGVVQPGRSLRLSCAASGFTFSSYAMHWVRQAPGKGLEWVAVISYDGSNKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARVGKGGYDFWSGSGYMDVWGKGTTVTVSSG

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21

Entity 3 polymer

description	YDF L chain
formula_weight	11129.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

SYVLTQPPSVSVSPGQTASITCSGDKLGDKYACWYQQKPGQSPVLVIYQDSKRPSGIPERFSGSNSGNTATLTISGTQAMDEADYYCQAWDSSTVVFGGGTKLTV

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21

Entity 4 polymer

description	RNA (83-MER)
formula_weight	26533.6 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	R

GGGAAACAGCGGAUGGGUAUCCCACCAUUCGACCCAUUGGGUGUAGUACUCUGGUACUAUGUACCUUUGUACGCCUGUUUCCC

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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	4.240 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	4.24 Å
resolution_method	—
num_particles	113246

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

HRV14 3C in complex with single chain antibody YDF and cloverleafRNA-conformation1 splitRNA

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 (4)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)