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9r8s

A viral SAVED protein with ring nuclease activity subverts type III CRISPR defence

Method: X-RAY DIFFRACTION D_max: 78.8 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9r8s
deposition_date	2025-05-16
title	A viral SAVED protein with ring nuclease activity subverts type III CRISPR defence
keywords	SAVED anti-CRISPR Defense, VIRAL PROTEIN; VIRAL PROTEIN
method	X-RAY DIFFRACTION

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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	24.79 Å
rg_electron	23.61 Å
i0	43404600.00
molecular_weight	54025.0 kDa
excluded_volume	68825 Å³
envelope_volume	80800 Å³
shell_volume	28255 Å³
envelope_diameter	82.0 Å
shell_rg	31.22 Å
envelope_rg	23.71 Å
shape_rg	23.58 Å
total_rg	24.61 Å
total_atoms	3821
n_residues	473
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	78.8 Å
rg_real	24.68 Å
rg_real_error	0.40 Å
i0_real	4.3400e+07
i0_real_error	5.2300e+05
rg_reciprocal	24.71 Å
i0_reciprocal	43410000.0000
total_estimate	0.9028
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	28.8 Å
skewness	0.235
kurtosis	-0.473
angular_range	— – 0.3200 Å⁻¹
current_alpha	0.0000
highest_alpha	10930000.0000
n_real_points	64
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.911; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.998

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	SMODS-associated and fused to various effectors domain-containing protein
formula_weight	27630.9 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	4025

GANAMAHMIGVYITKWGFEVETFKKALPKNTEVKTIAFTGDWIEAVRQFYSTVKEIDGHIHLALNGPSSLAFGCGVIFGSLKTFSFWHYQNGAYHTIPITNVRALKQRLKQYNYVEPFYEAGGKDLVVMLNYSHHEIKTAVKEYVMNKLRLENPSYLEISLKGITGNIPIELMPTVANETSSLLQDVKKHQSFDRFHFFFSCPVPIAFMVGVAFGLYDELVVYNFSGTYEPVLSFKDLKEVKL

Source

organism	Thermocrinis Great Boiling Spring virus
ncbi_taxonomy_id	2770617
host_organism	Escherichia coli

Entity 2 non-polymer

description	PHOSPHATE ION
formula_weight	95.0 kDa
src_method	syn
entity_count	2

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	204

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6. Citations (1)

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length_a	110.614 Å
length_b	110.614 Å
length_c	113.027 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 31 2 1
int_tables_number	152
crystal_system	—

resolution	1.790 Å
resolution_low	95.794 Å
r_factor	—
r_work	0.1649
r_free	0.2071

fit	/app/data/saxs_computation/r8/9r8s/9r8s.fit
pddf	/app/data/pr_computation/r8/9r8s/9r8s.pr.out
profile	/app/data/saxs_computation/r8/9r8s/9r8s.dat

A viral SAVED protein with ring nuclease activity subverts type III CRISPR defence

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

Diffraction