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9r94

Cryo-EM structure of the E3 ligase HECTD3

Method: ELECTRON MICROSCOPY D_max: 105.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

P(r) distribution for 9r94

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1. Structure Basics

entry_id	9r94
deposition_date	2025-05-19
title	Cryo-EM structure of the E3 ligase HECTD3
keywords	E3-ligase, ubiquitin, ubiquitination, HECT-ligase, LIGASE; LIGASE
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	33.12 Å
rg_electron	32.25 Å
i0	133213000.00
molecular_weight	92024.0 kDa
excluded_volume	115450 Å³
envelope_volume	158360 Å³
shell_volume	41369 Å³
envelope_diameter	105.0 Å
shell_rg	38.87 Å
envelope_rg	31.53 Å
shape_rg	32.23 Å
total_rg	32.91 Å
total_atoms	6481
n_residues	812
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	105.7 Å
rg_real	32.92 Å
rg_real_error	0.71 Å
i0_real	1.3320e+08
i0_real_error	1.9180e+06
rg_reciprocal	33.01 Å
i0_reciprocal	133200000.0000
total_estimate	0.8937
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	46.2 Å
skewness	0.128
kurtosis	-0.435
angular_range	— – 0.2400 Å⁻¹
current_alpha	0.0000
highest_alpha	21870000.0000
n_real_points	49
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.887; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.955

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

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6. Citations (2)

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7. Files & Curves (10)