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9vej

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

Method: ELECTRON MICROSCOPY D_max: 205.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vej
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	56.84 Å
rg_electron	56.66 Å
i0	3345940000.00
molecular_weight	476510.0 kDa
excluded_volume	592510 Å³
envelope_volume	893300 Å³
shell_volume	130650 Å³
envelope_diameter	213.7 Å
shell_rg	60.11 Å
envelope_rg	56.04 Å
shape_rg	56.70 Å
total_rg	56.61 Å
total_atoms	33521
n_residues	4309
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	205.5 Å
rg_real	56.70 Å
rg_real_error	1.75 Å
i0_real	3.3460e+09
i0_real_error	7.2040e+07
rg_reciprocal	56.95 Å
i0_reciprocal	3347000000.0000
total_estimate	0.7693
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	66.1 Å
skewness	0.294
kurtosis	-0.248
angular_range	— – 0.1400 Å⁻¹
current_alpha	0.0000
highest_alpha	276600000.0000
n_real_points	29
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.667; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Vip1
formula_weight	72654.5 kDa
src_method	man
entity_count	7

Polymer

type	polypeptide(L)
strand_id	B,A,C,D,E,F,G
atom_count	33521

DEDTDTDGDSIPDLWEENGYTIQNRIAVKWDDSLASKGYTKFVSNPLDSHTVGDPYTDYEKAARDLDMSNAKETFNPLVAAFPSVNVNMEKVILSPNKNLSNSVESHSSTNWSYTNTVGASVEAGFGPKGLSFGVSASYQHSETVAQEWGTSKGNTSQFNTASAGYLNANVRYNNVGTGAIYEVKPTTSFVLDKNTIATITAKSNSTALNISPGESYPKKGQNGIAITSMDDFNSHPITLNKQQVDQLLNNKPMMLETNQTDGVYKIKDTHGNIVTGGEWNGVTQQIKAKTASIIVDNGERVSEKRVAAKDYDYPEDKTPSLTLKDALKLSYPDEIKETDGLLYYNDKPIYESSVMTYLDENTAKEVKKQLNDTTGKFKDVNHLYDVKLTPRMNFTIKMSSLYDGAEGGSSSKPIGTWYNTSYVNGGNTGKKQFQSANSNAYVALSSEAKKKLNQSVNYYLSMYMKADSTTEPTVEVVGAKSTITSKKVKLNNQGYQRVDILVKNSERNLIDKIYIKGNGKTNVYWDDVTISEISAINPASLSDIEIQEIFKDSTIQYGNPSFAIDFITFKNIKPLQNYIKQYEIYQKIVGIDLGTGKEVITENTFNTEGDLKEDGSVKIDVRKNGFGFITFKGSNLKIQAIANDGRKIEVFNKIF

Source

organism	Bacillus thuringiensis
ncbi_taxonomy_id	1428
host_organism	Bacillus thuringiensis

Entity 2 polymer

description	Vip2
formula_weight	44166.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

AKEWGKEKEKEWKLTATEKGKMNDFLNDKNKIKTNYKEITFSMAGSFEDEMKNLKEIDKMFDKANLSSSIITYKNVEPATIGFNKSLIEGNTINSDALAQFKEQFLDRDMKFDSYLDTHLTAQQVSSKERVIMKVTVPSGKGSTTPTKAGVILNNNEYKMLIDNGYVLHVDKVSKVVKKGFECVQVEGILKKSLDFKNDINAESHSWGMKNYEGWAKNLTDSQREALDGYARQDYKEINDYLRNQGGSGNEKLDAQIKNISEALGKKPIPENITVYRWCGMPEFGYQISDPLPSLKDFEEKFLNTIKEDKGYMSTSLSSERLAAFGSRKIILRLQVPKGSTGAYLSAIGGFASEKEILLDKDSKYHIDKVTEVVIKGVKRYVIDATLLTK

Source

organism	Bacillus thuringiensis
ncbi_taxonomy_id	1428
host_organism	Bacillus thuringiensis

Entity 3 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	21

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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	2.400 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.40 Å
resolution_method	—
num_particles	265183

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

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 (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)