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9s10

Hexameric AAV2 Rep40-dsDNA (ITR) duplex complex in presence of ATPyS

Method: ELECTRON MICROSCOPY D_max: 122.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9s10
deposition_date	2025-07-17
title	Hexameric AAV2 Rep40-dsDNA (ITR) duplex complex in presence of ATPyS
keywords	Helicase, Adeno-associated Virus, AAA+ ATPase, DNA BINDING PROTEIN; DNA BINDING PROTEIN
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	38.78 Å
rg_electron	38.64 Å
i0	599240000.00
molecular_weight	195120.0 kDa
excluded_volume	242150 Å³
envelope_volume	329180 Å³
shell_volume	69444 Å³
envelope_diameter	122.5 Å
shell_rg	45.97 Å
envelope_rg	37.56 Å
shape_rg	38.71 Å
total_rg	38.82 Å
total_atoms	13711
n_residues	1673
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	122.3 Å
rg_real	38.55 Å
rg_real_error	0.90 Å
i0_real	5.9920e+08
i0_real_error	1.0140e+07
rg_reciprocal	38.69 Å
i0_reciprocal	599300000.0000
total_estimate	0.8924
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	47.7 Å
skewness	0.180
kurtosis	-0.473
angular_range	— – 0.2050 Å⁻¹
current_alpha	0.0000
highest_alpha	89090000.0000
n_real_points	42
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.901; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.979; Smooth: 0.914

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	DNA
formula_weight	44697.4 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	H
atom_count	13711

TTGGCCACTCCCTCTCTGCGCGCTCGCTCGCTCACTGAGGCCGGGCGACCAAAGGTCGCCCGACGCCCGGGCTTTGCCCGGGCGGCCTCAGTGAGCGAGCGAGCGCGCAGAGAGGGAGTGGCCAACTCCATCACTAGGGGTTCCT

Entity 2 polymer

description	Protein Rep40
formula_weight	44148.9 kDa
ec_number	3.6.4.12
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	a,b,c,d,e,f

EQNKENQNPNSDAPVIRSKTSARYMELVGWLVDKGITSEKQWIQEDQASYISFNAASNSRSQIKAALDNAGKIMSLTKTAPDYLVGQQPVEDISSNRIYKILELNGYDPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGKMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFELTRRLDHDFGKVTKQEVKDFFRWAKDHVVEVEHEFYVKKGGAKKRPAPSDADISEPKRVRESVAQPSTSDAEASINYADRLARGHSLGSLVPRGSGGGGSGGGGSGGGGSMDYKDHDGDYKDHDIDYKDDDDKGSENLYFQSHHHHHH

Source

organism	adeno-associated virus 2
ncbi_taxonomy_id	10804
host_organism	Escherichia coli

Entity 3 non-polymer

description	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
formula_weight	523.2 kDa
src_method	syn
entity_count	2

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 5 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	1

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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	3.07 Å
resolution_method	—
num_particles	108620

fit	/app/data/saxs_computation/s1/9s10/9s10.fit
pddf	/app/data/pr_computation/s1/9s10/9s10.pr.out
profile	/app/data/saxs_computation/s1/9s10/9s10.dat

Hexameric AAV2 Rep40-dsDNA (ITR) duplex complex in presence of ATPyS

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 (5)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)