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9zm0

Crystal structure of monomeric Atg23

Method: X-RAY DIFFRACTION D_max: 115.0 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9zm0
deposition_date	2025-12-09
last_revision	2026-01-07
title	Crystal structure of monomeric Atg23
keywords	Autophagy, Degradation, Membrane Tethering, PROTEIN TRANSPORT; PROTEIN TRANSPORT
method	X-RAY DIFFRACTION

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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	30.86 Å
rg_electron	30.96 Å
i0	15532400.00
molecular_weight	28943.0 kDa
excluded_volume	35655 Å³
envelope_volume	48949 Å³
shell_volume	16033 Å³
envelope_diameter	118.6 Å
shell_rg	31.24 Å
envelope_rg	31.45 Å
shape_rg	30.90 Å
total_rg	31.17 Å
total_atoms	2001
n_residues	244
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	115.0 Å
rg_real	31.64 Å
rg_real_error	1.73 Å
i0_real	1.5530e+07
i0_real_error	2.9220e+05
rg_reciprocal	31.31 Å
i0_reciprocal	15530000.0000
total_estimate	0.6436
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	20.3 Å
skewness	0.650
kurtosis	-0.424
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0000
highest_alpha	1564000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.161; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.014; Smooth: 0.865

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Autophagy-related protein 23
formula_weight	31961.0 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2101

GAMGSMELNQVLEKKEQILQYLGTLVGLHEKALSDVNSASQVTSIRKDITICLNDLCRINDLLVSHDGLLKREIGSLLRDKQELLELNEREQLLWKERKSANNSSEMGNIDFHLSKIEESKHQLMKRIGFESPLTQEKSLSEKIFNLRLSSADEDYNERQTINMKNFVHMKDLIELKIEDLQEQLMRNKNESSTVLTQRELWLDCQKKVGDLESKLITKLRSSSNSKIPPNEMSEMINSTIQYLNNLLDSSDEKLTTTLISNERDVLSKACEEL

Source

organism	Saccharomyces cerevisiae
common_name	;brewer's yeast ;
ncbi_taxonomy_id	4932
host_organism	Escherichia coli B

Entity 2 polymer

description	unidentified Atg23 fragment
formula_weight	869.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

XXXXXXXXXX

Source

organism	Saccharomyces cerevisiae
ncbi_taxonomy_id	4932
host_organism	Escherichia coli B

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	100

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6. Citations (1)

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length_a	50.409 Å
length_b	30.101 Å
length_c	91.244 Å
angle_alpha	90.00 °
angle_beta	97.15 °
angle_gamma	90.00 °
z_pdb	2

space_group	P 1 21 1
int_tables_number	4
crystal_system	monoclinic

resolution	2.100 Å
resolution_low	46.290 Å
r_factor	0.2412
r_work	0.2384
r_free	0.2976

fit	/app/data/saxs_computation/zm/9zm0/9zm0.fit
pddf	/app/data/pr_computation/zm/9zm0/9zm0.pr.out
profile	/app/data/saxs_computation/zm/9zm0/9zm0.dat

Crystal structure of monomeric Atg23

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

Diffraction

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)