Cryo-EM structure of the aspartate:alanine antiporter AspT mutant L60C

Method: ELECTRON MICROSCOPY D_max: 106.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9veb
deposition_date	2025-06-09
title	Cryo-EM structure of the aspartate:alanine antiporter AspT mutant L60C
keywords	amino acid, antiporter, elevator mechanism, TRANSPORT PROTEIN; TRANSPORT 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	34.11 Å
rg_electron	33.55 Å
i0	167785000.00
molecular_weight	114360.0 kDa
excluded_volume	147860 Å³
envelope_volume	189000 Å³
shell_volume	47225 Å³
envelope_diameter	111.2 Å
shell_rg	40.16 Å
envelope_rg	33.00 Å
shape_rg	33.51 Å
total_rg	34.23 Å
total_atoms	8044
n_residues	1084
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	106.6 Å
rg_real	34.00 Å
rg_real_error	0.61 Å
i0_real	1.6780e+08
i0_real_error	2.5610e+06
rg_reciprocal	34.07 Å
i0_reciprocal	167800000.0000
total_estimate	0.9000
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	44.0 Å
skewness	0.186
kurtosis	-0.483
angular_range	— – 0.2300 Å⁻¹
current_alpha	0.0000
highest_alpha	21580000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.949; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.852

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

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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	3.560 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.56 Å
resolution_method	—
num_particles	250605

description	Aspartate/alanine antiporter
formula_weight	57977.8 kDa
mutation	L60C
src_method	man
entity_count	2

Cryo-EM structure of the aspartate:alanine antiporter AspT mutant L60C

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 (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Tetragenococcus halophilus
ncbi_taxonomy_id	51669
host_organism	Escherichia coli BL21(DE3)

fit	/app/data/saxs_computation/ve/9veb/9veb.fit
pddf	/app/data/pr_computation/ve/9veb/9veb.pr.out
profile	/app/data/saxs_computation/ve/9veb/9veb.dat

type	polypeptide(L)
strand_id	A,B
atom_count	8046