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9wqr

cryo-EM structure of human organic solute transporter in complex with fidaxomicin

Method: ELECTRON MICROSCOPY D_max: 94.1 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9wqr
deposition_date	2025-09-11
title	cryo-EM structure of human organic solute transporter in complex with fidaxomicin
keywords	fidaxomicin, TRANSPORTER, 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	30.81 Å
rg_electron	28.95 Å
i0	102300000.00
molecular_weight	98863.0 kDa
excluded_volume	132230 Å³
envelope_volume	161760 Å³
shell_volume	44773 Å³
envelope_diameter	98.7 Å
shell_rg	37.71 Å
envelope_rg	29.12 Å
shape_rg	28.93 Å
total_rg	30.03 Å
total_atoms	6930
n_residues	760
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	94.1 Å
rg_real	30.65 Å
rg_real_error	0.56 Å
i0_real	1.0230e+08
i0_real_error	1.4590e+06
rg_reciprocal	30.72 Å
i0_reciprocal	102300000.0000
total_estimate	0.9069
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	42.4 Å
skewness	0.137
kurtosis	-0.483
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0000
highest_alpha	25300000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.950; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.937

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Organic solute transporter subunit beta
formula_weight	14361.3 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,D
atom_count	6930

MEHSEGAPGDPAGTVVPQELLEEMLWFFRVEDASPWNHSILALAAVVVIISMVLLGRSIQASRKEKMQPPEKETPEVLHLDEAKDHNSLNNLRETLLSEKPNLAQVELELKERDVLSVFLPDVPETES

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Organic solute transporter subunit alpha
formula_weight	37768.9 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,C

MEPGRTQIKLDPRYTADLLEVLKTNYGIPSACFSQPPTAAQLLRALGPVELALTSILTLLALGSIAIFLEDAVYLYKNTLCPIKRRTLLWKSSAPTVVSVLCCFGLWIPRSLVLVEMTITSFYAVCFYLLMLVMVEGFGGKEAVLRTLRDTPMMVHTGPCCCCCPCCPRLLLTRKKLQLLMLGPFQYAFLKITLTLVGLFLVPDGIYDPADISEGSTALWINTFLGVSTLLALWTLGIISRQARLHLGEQNMGAKFALFQVLLILTALQPSIFSVLANGGQIACSPPYSSKTRSQVMNCHLLILETFLMTVLTRMYYRRKDHKVGYETFSSPDLDLNLKA

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 non-polymer

description	CHOLESTEROL
formula_weight	386.7 kDa
src_method	syn
entity_count	12

Entity 4 non-polymer

description	PALMITIC ACID
formula_weight	256.4 kDa
src_method	syn
entity_count	14

Entity 5 non-polymer

description	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate
formula_weight	760.1 kDa
src_method	syn
entity_count	6

Entity 6 non-polymer

description	Fidaxomicin
formula_weight	1058.0 kDa
src_method	syn
entity_count	2

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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	2.790 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.79 Å
resolution_method	—
num_particles	689213

fit	/app/data/saxs_computation/wq/9wqr/9wqr.fit
pddf	/app/data/pr_computation/wq/9wqr/9wqr.pr.out
profile	/app/data/saxs_computation/wq/9wqr/9wqr.dat

cryo-EM structure of human organic solute transporter in complex with fidaxomicin

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 (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)