← Back to search

9yro

Cryo-EM structure of SARS-CoV-2 nsp10-nsp14 (E191A) in complex with T20P14-S complex, monomeric form

Method: ELECTRON MICROSCOPY D_max: 117.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9yro
deposition_date	2025-10-16
title	Cryo-EM structure of SARS-CoV-2 nsp10-nsp14 (E191A) in complex with T20P14-S complex, monomeric form
keywords	;SARS-CoV-2, replication and transcription, mismatch, proofreading exoribonuclease, VIRAL PROTEIN, VIRAL PROTEIN-RNA complex, nucleoside analog ;; VIRAL PROTEIN/RNA
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	33.22 Å
rg_electron	33.48 Å
i0	192140000.00
molecular_weight	72304.0 kDa
excluded_volume	68728 Å³
envelope_volume	123960 Å³
shell_volume	33471 Å³
envelope_diameter	120.0 Å
shell_rg	37.03 Å
envelope_rg	33.84 Å
shape_rg	33.43 Å
total_rg	33.76 Å
total_atoms	5388
n_residues	657
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

▼

3. P(r) Analysis (GNOM)

dmax	117.1 Å
rg_real	33.69 Å
rg_real_error	1.30 Å
i0_real	1.9210e+08
i0_real_error	3.7670e+06
rg_reciprocal	33.49 Å
i0_reciprocal	192100000.0000
total_estimate	0.8064
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	31.7 Å
skewness	0.597
kurtosis	-0.244
angular_range	— – 0.2400 Å⁻¹
current_alpha	0.0000
highest_alpha	15640000.0000
n_real_points	49
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.684; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.638; Smooth: 0.790

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (6)

Entity 1 polymer

description	Non-structural protein 10
formula_weight	14802.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	5438

AGNATEVPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLKNTVCTVCGMWKGYGCSCDQLREPMLQ

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Escherichia coli

Entity 2 polymer

description	Proofreading exoribonuclease
formula_weight	59829.4 kDa
ec_number	3.1.13.-
mutation	E191A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

AENVTGLFKDCSKVITGLHPTQAPTHLSVDTKFKTEGLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSRVSAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFALTSMKYFVKIGPERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDLYCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVKAALLADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSDKFTDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFVNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYLDAYNMMISAGFSLWVYKQFDTYNLWNTFTRLQ

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Escherichia coli

Entity 3 polymer

description	T20P14-S RNA
formula_weight	10916.5 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	E

GGGACAGGGAUUUUUAGCUUCGGCUAAAAAUCCC

Entity 4 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	5

Entity 5 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	1

Entity 6 non-polymer

description	;[(2~{R},3~{R},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-4-methyl-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate ;
formula_weight	340.2 kDa
src_method	syn
entity_count	1

▶

6. Citations (1)

▶

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	2.55 Å
resolution_method	—
num_particles	348238

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

Cryo-EM structure of SARS-CoV-2 nsp10-nsp14 (E191A) in complex with T20P14-S complex, monomeric form

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 (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)