Structural basis for the assembly and translocation of the Vip1-Vip2 insecticidal binary toxin from Bacillus thuringiensis

Method: ELECTRON MICROSCOPY D_max: 176.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vek
deposition_date	2025-06-09
title	Structural basis for the assembly and translocation of the Vip1-Vip2 insecticidal binary toxin from Bacillus thuringiensis
keywords	binary toxin, biopesticide, TOXIN; TOXIN
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	55.99 Å
rg_electron	55.88 Å
i0	2584190000.00
molecular_weight	416590.0 kDa
excluded_volume	517330 Å³
envelope_volume	784390 Å³
shell_volume	116200 Å³
envelope_diameter	177.6 Å
shell_rg	58.76 Å
envelope_rg	55.60 Å
shape_rg	55.91 Å
total_rg	55.82 Å
total_atoms	29302
n_residues	3780
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	176.3 Å
rg_real	55.85 Å
rg_real_error	1.35 Å
i0_real	2.5840e+09
i0_real_error	5.2900e+07
rg_reciprocal	56.09 Å
i0_reciprocal	2585000000.0000
total_estimate	0.8258
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	63.0 Å
skewness	0.236
kurtosis	-0.463
angular_range	— – 0.1400 Å⁻¹
current_alpha	0.0000
highest_alpha	136200000.0000
n_real_points	29
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.919; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.975; Smooth: 0.000

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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	3.310 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.31 Å
resolution_method	—
num_particles	43696

description	Vip1
formula_weight	72654.5 kDa
src_method	man
entity_count	7

Structural basis for the assembly and translocation of the Vip1-Vip2 insecticidal binary toxin from Bacillus thuringiensis

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 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Bacillus thuringiensis
ncbi_taxonomy_id	1428
host_organism	Bacillus thuringiensis

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	21

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

type	polypeptide(L)
strand_id	A,B,C,D,E,F,G
atom_count	29302