Cryo-EM structure of human choline-phosphotransferase 1

Method: ELECTRON MICROSCOPY D_max: 103.8 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uet
deposition_date	2025-04-09
title	Cryo-EM structure of human choline-phosphotransferase 1
keywords	phosphotransferase, MEMBRANE PROTEIN; MEMBRANE 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	32.41 Å
rg_electron	32.18 Å
i0	88851700.00
molecular_weight	83793.0 kDa
excluded_volume	108400 Å³
envelope_volume	135800 Å³
shell_volume	35523 Å³
envelope_diameter	109.7 Å
shell_rg	38.68 Å
envelope_rg	31.94 Å
shape_rg	32.20 Å
total_rg	32.69 Å
total_atoms	5906
n_residues	736
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	103.8 Å
rg_real	32.50 Å
rg_real_error	0.69 Å
i0_real	8.8850e+07
i0_real_error	1.3260e+06
rg_reciprocal	32.47 Å
i0_reciprocal	88850000.0000
total_estimate	0.6799
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	33.9 Å
skewness	0.329
kurtosis	-0.589
angular_range	— – 0.2450 Å⁻¹
current_alpha	0.0000
highest_alpha	10980000.0000
n_real_points	50
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.937; Stabil: 1.000; Sysdev: 0.096; Positv: 1.000; Valcen: 0.953; Smooth: 0.782

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Cholinephosphotransferase 1
formula_weight	45131.7 kDa
ec_number	2.7.8.2
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5906

MAAGAGAGSAPRWLRALSEPLSAAQLRRLEEHRYSAAGVSLLEPPLQLYWTWLLQWIPLWMAPNSITLLGLAVNVVTTLVLISYCPTATEEAPYWTYLLCALGLFIYQSLDAIDGKQARRTNSCSPLGELFDHGCDSLSTVFMAVGASIAARLGTYPDWFFFCSFIGMFVFYCAHWQTYVSGMLRFGKVDVTEIQIALVIVFVLSAFGGATMWDYTIPILEIKLKILPVLGFLGGVIFSCSNYFHVILHGGVGKNGSTIAGTSVLSPGLHIGLIIILAIMIYKKSATDVFEKHPCLYILMFGCVFAKVSQKLVVAHMTKSELYLQDTVFLGPGLLFLDQYFNNFIDEYVVLWMAMVISSFDMVIYFSALCLQISRHLHLNIFKTACHQAPEQVQVLSSKSHQNNMD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 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	2

Entity 3 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	4

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6. Citations (1)

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resolution	3.68 Å
resolution_method	—
num_particles	295158

fit	/app/data/saxs_computation/ue/9uet/9uet.fit
pddf	/app/data/pr_computation/ue/9uet/9uet.pr.out
profile	/app/data/saxs_computation/ue/9uet/9uet.dat