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9qnb

RAD51 filament in complex with magnesium and ADP

Method: ELECTRON MICROSCOPY D_max: 163.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qnb
deposition_date	2025-03-24
title	RAD51 filament in complex with magnesium and ADP
keywords	RAD51 recombinase, RAD51AP1, filament modulation, homologous recombination, nucleotide hydrolysis, 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	48.03 Å
rg_electron	48.06 Å
i0	675911000.00
molecular_weight	211190.0 kDa
excluded_volume	262870 Å³
envelope_volume	376420 Å³
shell_volume	65531 Å³
envelope_diameter	172.9 Å
shell_rg	51.86 Å
envelope_rg	47.30 Å
shape_rg	48.05 Å
total_rg	48.22 Å
total_atoms	14791
n_residues	1919
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	163.2 Å
rg_real	48.28 Å
rg_real_error	1.62 Å
i0_real	6.7590e+08
i0_real_error	1.3820e+07
rg_reciprocal	48.03 Å
i0_reciprocal	675700000.0000
total_estimate	0.8513
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	39.6 Å
skewness	0.358
kurtosis	-0.581
angular_range	— – 0.1650 Å⁻¹
current_alpha	0.0000
highest_alpha	280600000.0000
n_real_points	34
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.798; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.919; Smooth: 0.751

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 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	A,C,E,G,I,K
atom_count	14791

MAMQMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDAKD

Source

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

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	6

Entity 3 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	6

Entity 4 non-polymer

description	POTASSIUM ION
formula_weight	39.1 kDa
src_method	syn
entity_count	6

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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	3.630 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.63 Å
resolution_method	—
num_particles	229610

fit	/app/data/saxs_computation/qn/9qnb/9qnb.fit
pddf	/app/data/pr_computation/qn/9qnb/9qnb.pr.out
profile	/app/data/saxs_computation/qn/9qnb/9qnb.dat

RAD51 filament in complex with magnesium and ADP

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