Structure of UbcH5b in complex with the U-box domain of the E3 ubiquitin ligase CHIP

entry_id	9ye9
deposition_date	2025-09-23
title	Structure of UbcH5b in complex with the U-box domain of the E3 ubiquitin ligase CHIP
keywords	Ubiquitin conjugating enzyme, ubiquitin ligase, LIGASE; LIGASE
method	X-RAY DIFFRACTION

rg_guinier	24.52 Å
rg_electron	23.69 Å
i0	19340700.00
molecular_weight	33592.0 kDa
excluded_volume	42023 ų
envelope_volume	52219 ų
shell_volume	19380 ų
envelope_diameter	82.8 Å
shell_rg	29.69 Å
envelope_rg	23.60 Å
shape_rg	23.72 Å
total_rg	24.36 Å
total_atoms	2352
n_residues	294
n_harmonics	20
q_range	— – 0.5000 Å−1
n_points	101
shell_type	directional
solvent_density	0.3340 e/ų
contrast_shell	0.0300 e/ų
crysol_version	4.1.3

dmax	80.3 Å
rg_real	24.64 Å
rg_real_error	0.57 Å
i0_real	1.9340e+07
i0_real_error	2.5090e+05
rg_reciprocal	24.62 Å
i0_reciprocal	19340000.0000
total_estimate	0.8775
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	21.7 Å
skewness	0.368
kurtosis	-0.575
angular_range	— – 0.3250 Å−1
current_alpha	0.0000
highest_alpha	4701000.0000
n_real_points	64
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.886; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.792; Smooth: 0.953

Unit Cell

length_a	58.081 Å
length_b	59.138 Å
length_c	112.834 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

Symmetry

space_group	P 21 21 21
int_tables_number	19
crystal_system	orthorhombic

Refinement

resolution	2.010 Å
resolution_low	41.440 Å
r_factor	0.2450
r_work	0.2415
r_free	0.2881

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/ye/9ye9/pr_distribution.json
• pr_output /app/data/pr_computation/ye/9ye9/9ye9.pr.out
• pr_plot /app/data/visualization/pr_computation/ye/9ye9/9ye9_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/ye/9ye9/9ye9.dat
• saxs_fit /app/data/saxs_computation/ye/9ye9/9ye9.fit
• saxs_log /app/data/saxs_computation/ye/9ye9/9ye9.log
• saxs_plot /app/data/visualization/saxs_computation/ye/9ye9/9ye9_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/ye/9ye9/9ye9.fit
pddf	/app/data/pr_computation/ye/9ye9/9ye9.pr.out
profile	/app/data/saxs_computation/ye/9ye9/9ye9.dat