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9rm5

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

Method: ELECTRON MICROSCOPY D_max: 111.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9rm5
deposition_date	2025-06-17
title	Hexameric AAV2 Rep40-ssDNA (ITR) 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	36.53 Å
rg_electron	35.98 Å
i0	592654000.00
molecular_weight	194410.0 kDa
excluded_volume	241630 Å³
envelope_volume	306880 Å³
shell_volume	67882 Å³
envelope_diameter	117.7 Å
shell_rg	44.70 Å
envelope_rg	35.44 Å
shape_rg	36.05 Å
total_rg	36.30 Å
total_atoms	13657
n_residues	1678
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	111.5 Å
rg_real	36.30 Å
rg_real_error	0.75 Å
i0_real	5.9270e+08
i0_real_error	8.9660e+06
rg_reciprocal	36.45 Å
i0_reciprocal	592700000.0000
total_estimate	0.8970
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	46.7 Å
skewness	0.132
kurtosis	-0.476
angular_range	— – 0.2150 Å⁻¹
current_alpha	0.0000
highest_alpha	112000000.0000
n_real_points	44
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.926; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.906

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 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
atom_count	13657

EQNKENQNPNSDAPVIRSKTSARYMELVGWLVDKGITSEKQWIQEDQASYISFNAASNSRSQIKAALDNAGKIMSLTKTAPDYLVGQQPVEDISSNRIYKILELNGYDPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGKMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFELTRRLDHDFGKVTKQEVKDFFRWAKDHVVEVEHEFYVKKGGAKKRPAPSDADISEPKRVRESVAQPSTSDAEASINYADRLARGHSLGSLVPRGSGGGGSGGGGSGGGGSMDYKDHDGDYKDHDIDYKDDDDKGSENLYFQSHHHHHH

Source

organism	adeno-associated virus 2
ncbi_taxonomy_id	10804
host_organism	Escherichia coli

Entity 2 polymer

description	DNA
formula_weight	2846.9 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	s

CCCCCCCCCC

Entity 3 non-polymer

description	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
formula_weight	523.2 kDa
src_method	syn
entity_count	4

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	5

Entity 5 non-polymer

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

resolution	2.44 Å
resolution_method	—
num_particles	91099

fit	/app/data/saxs_computation/rm/9rm5/9rm5.fit
pddf	/app/data/pr_computation/rm/9rm5/9rm5.pr.out
profile	/app/data/saxs_computation/rm/9rm5/9rm5.dat

Hexameric AAV2 Rep40-ssDNA (ITR) 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

Source

Entity 2 polymer

Polymer

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)