← Back to search

9w3z

Cryo-EM structure of the 4:4 Lac1-Lip1 complex

Method: ELECTRON MICROSCOPY D_max: 189.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9w3z
deposition_date	2025-07-30
title	Cryo-EM structure of the 4:4 Lac1-Lip1 complex
keywords	Complex, Transferase; TRANSFERASE
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	59.66 Å
rg_electron	60.53 Å
i0	526889000.00
molecular_weight	209490.0 kDa
excluded_volume	268870 Å³
envelope_volume	440480 Å³
shell_volume	64881 Å³
envelope_diameter	206.9 Å
shell_rg	55.25 Å
envelope_rg	58.83 Å
shape_rg	60.53 Å
total_rg	60.37 Å
total_atoms	29422
n_residues	1800
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

▼

3. P(r) Analysis (GNOM)

dmax	189.6 Å
rg_real	60.33 Å
rg_real_error	2.01 Å
i0_real	5.2690e+08
i0_real_error	1.0890e+07
rg_reciprocal	59.05 Å
i0_reciprocal	525800000.0000
total_estimate	0.8078
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	65.6 Å
skewness	0.502
kurtosis	-0.421
angular_range	— – 0.1300 Å⁻¹
current_alpha	0.0000
highest_alpha	15100000.0000
n_real_points	27
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.854; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.934; Smooth: 0.002

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (2)

Entity 1 polymer

description	Ceramide synthase LAC1
formula_weight	50289.1 kDa
ec_number	2.3.1.297
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,C,E,G
atom_count	29422

MSTIKPSPSNNNLKVRSRPRRKSSIGKIDLGDTVPSLGTMFETKESKTAAKRRMQRLSEATKNDSDLVKKIWFSFREISYRHAWIAPLMILIAVYSAYFTSGNTTKTNVLHRFVAVSYQIGDTNAYGKGINDLCFVFYYMIFFTFLREFLMDVVIRPFAIRLHVTSKHRIKRIMEQMYAIFYTGVSGPFGIYCMYHSDLWFFNTKAMYRTYPDFTNPFLFKVFYLGQAAFWAQQACILVLQLEKPRKDHNELTFHHIVTLLLIWSSYVFHFTKMGLPIYITMDVSDFLLSFSKTLNYLDSGLAFFSFAIFVVAWIYLRHYINLKILWSVLTQFRTEGNYVLNFATQQYKCWISLPIVFVLIGALQLVNLYWLFLIFRVLYRILWRGILKDDRSDSESDEESDESSTTPTDSTPTKKDILEDYKDDDDK

Source

organism	Saccharomyces cerevisiae S288C
ncbi_taxonomy_id	559292
host_organism	Homo sapiens

Entity 2 polymer

description	Ceramide synthase subunit LIP1
formula_weight	17228.7 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	B,D,F,H

MSQPTPIITTKSAAKPKPKIFNLFRVCFISLLLIAAVEYFKYGTRINYEWFHCTPIKEPQSGSVIKLWARGGPSCDKRGEYKTIVKRITRDYEPNDEHLSFCIIENDNVPPVHYPIHEDKGEPGYVAYVGYDTDSELVQELCADSTIYHM

Source

organism	Saccharomyces cerevisiae S288C
ncbi_taxonomy_id	559292
host_organism	Homo sapiens

▶

6. Citations (1)

▶

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	3.36 Å
resolution_method	—
num_particles	219798

fit	/app/data/saxs_computation/w3/9w3z/9w3z.fit
pddf	/app/data/pr_computation/w3/9w3z/9w3z.pr.out
profile	/app/data/saxs_computation/w3/9w3z/9w3z.dat

Cryo-EM structure of the 4:4 Lac1-Lip1 complex

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

EM 3D

5. Entities & Polymer Info (2)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)