← Back to search

9up4

Crystal structure of Ebola virus VP30 and its peptide RPL1

Method: X-RAY DIFFRACTION D_max: 67.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9up4
deposition_date	2025-04-27
last_revision	2026-04-29
title	Crystal structure of Ebola virus VP30 and its peptide RPL1
keywords	Ebola virus, VP30, VIRAL PROTEIN; VIRAL PROTEIN
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	20.69 Å
rg_electron	19.49 Å
i0	15226300.00
molecular_weight	30007.0 kDa
excluded_volume	37993 Å³
envelope_volume	44290 Å³
shell_volume	19365 Å³
envelope_diameter	69.0 Å
shell_rg	25.44 Å
envelope_rg	19.66 Å
shape_rg	19.52 Å
total_rg	20.29 Å
total_atoms	2110
n_residues	265
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	67.1 Å
rg_real	20.68 Å
rg_real_error	0.42 Å
i0_real	1.5230e+07
i0_real_error	1.7840e+05
rg_reciprocal	20.68 Å
i0_reciprocal	15230000.0000
total_estimate	0.8003
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.3 Å
skewness	0.365
kurtosis	-0.333
angular_range	— – 0.3850 Å⁻¹
current_alpha	0.0000
highest_alpha	7383000.0000
n_real_points	70
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.802; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.000

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	Transcriptional activator VP30
formula_weight	15110.4 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	2143

PKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLVPQSDNEE

Source

organism	Ebola virus
ncbi_taxonomy_id	1570291
host_organism	Escherichia coli

Entity 2 polymer

description	Peptide RPL1
formula_weight	1619.8 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F

PVFRPEPPPPEYPP

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
host_organism	Escherichia coli

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	22

▶

6. Citations (1)

▶

length_a	111.973 Å
length_b	111.973 Å
length_c	48.932 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 65
int_tables_number	170
crystal_system	hexagonal

resolution	2.760 Å
resolution_low	55.990 Å
r_factor	0.2621
r_work	0.2595
r_free	0.3128

fit	/app/data/saxs_computation/up/9up4/9up4.fit
pddf	/app/data/pr_computation/up/9up4/9up4.pr.out
profile	/app/data/saxs_computation/up/9up4/9up4.dat

Crystal structure of Ebola virus VP30 and its peptide RPL1

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)