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9tyy

RAD51-ssDNA filament in complex with calcium and ATP bound by the RAD54 N-terminus

Method: ELECTRON MICROSCOPY D_max: 146.9 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9tyy
deposition_date	2026-01-21
title	RAD51-ssDNA filament in complex with calcium and ATP bound by the RAD54 N-terminus
keywords	RAD51 recombinase, RAD54, filament modulation, homologous recombination, 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	43.85 Å
rg_electron	43.83 Å
i0	771313000.00
molecular_weight	220090.0 kDa
excluded_volume	271900 Å³
envelope_volume	347150 Å³
shell_volume	64911 Å³
envelope_diameter	156.1 Å
shell_rg	49.40 Å
envelope_rg	43.70 Å
shape_rg	43.84 Å
total_rg	44.02 Å
total_atoms	15361
n_residues	1944
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	146.9 Å
rg_real	45.56 Å
rg_real_error	0.53 Å
i0_real	7.6880e+08
i0_real_error	1.1180e+07
rg_reciprocal	43.85 Å
i0_reciprocal	771200000.0000
total_estimate	0.6801
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	40.8 Å
skewness	0.422
kurtosis	-0.417
angular_range	— – 0.1800 Å⁻¹
current_alpha	1.9150
highest_alpha	312500000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.880; Stabil: 0.890; Sysdev: 0.000; Positv: 1.000; Valcen: 0.941; Smooth: 0.637

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	DNA
formula_weight	5448.6 kDa
src_method	syn
entity_count	1

Polymer

type	polydeoxyribonucleotide
strand_id	O
atom_count	15361

AACAACAACAACAACAAC

Entity 2 polymer

description	DNA repair and recombination protein RAD54-like
formula_weight	1186.4 kDa
ec_number	3.6.4.-
src_method	man
entity_count	6

Polymer

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

XMRRSLAPSQL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Trichoplusia ni

Entity 3 polymer

description	DNA repair protein RAD51 homolog 1
formula_weight	37009.1 kDa
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	I,J,K,L,M,N

MAMQMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDAKD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli BL21(DE3)

Entity 4 non-polymer

description	ADENOSINE-5'-TRIPHOSPHATE
formula_weight	507.2 kDa
src_method	syn
entity_count	6

Entity 5 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	12

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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	3.200 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.20 Å
resolution_method	—
num_particles	1388876

fit	/app/data/saxs_computation/ty/9tyy/9tyy.fit
pddf	/app/data/pr_computation/ty/9tyy/9tyy.pr.out
profile	/app/data/saxs_computation/ty/9tyy/9tyy.dat

RAD51-ssDNA filament in complex with calcium and ATP bound by the RAD54 N-terminus

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 (5)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)