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9v32

Human claudin 18.2 in complex with the Fab fragment of Zolbetuximab

Method: ELECTRON MICROSCOPY D_max: 129.9 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9v32
deposition_date	2025-05-21
title	Human claudin 18.2 in complex with the Fab fragment of Zolbetuximab
keywords	;CLDN18.2, tight junction protein, therapeutic antibody, gastric cancer, MEMBRANE PROTEIN/IMMUNE SYSTEM, MEMBRANE PROTEIN-IMMUNE SYSTEM complex ;; MEMBRANE PROTEIN/IMMUNE SYSTEM
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	34.53 Å
rg_electron	35.76 Å
i0	64185800.00
molecular_weight	64111.0 kDa
excluded_volume	80597 Å³
envelope_volume	116510 Å³
shell_volume	31476 Å³
envelope_diameter	137.7 Å
shell_rg	36.04 Å
envelope_rg	36.12 Å
shape_rg	35.59 Å
total_rg	36.36 Å
total_atoms	4507
n_residues	593
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	129.9 Å
rg_real	35.14 Å
rg_real_error	1.69 Å
i0_real	6.4190e+07
i0_real_error	1.2180e+06
rg_reciprocal	34.76 Å
i0_reciprocal	64160000.0000
total_estimate	0.7462
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	127.1 Å
skewness	0.800
kurtosis	0.240
angular_range	— – 0.2300 Å⁻¹
current_alpha	0.0000
highest_alpha	7868000.0000
n_real_points	47
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.482; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.501; Smooth: 0.751

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Isoform A2 of Claudin-18
formula_weight	22236.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4507

MAVTACQGLGFVVSLIGIAGIIAATCMDQWSTQDLYNNPVTAVFNYQGLWRSCVRESSGFTECRGYFTLLGLPAMLQAVRALMIVGIVLGAIGLLVSIFALKCIRIGSMEDSAKANMTLTSGIMFIVSGLCAIAGVSVFANMLVTNFWMSTANMYTGMGGMVQTVQTRYTFGAALFVGWVAGGLTLIGGVMMCIACRGLAPEETNYKAAAA

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Komagataella pastoris

Entity 2 polymer

description	Fab of Zolbetuximab - Heavy chain
formula_weight	27299.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

QVQLQQPGAELVRPGASVKLSCKASGYTFTSYWINWVKQRPGQGLEWIGNIYPSDSYTNYNQKFKDKATLTVDKSSSTAYMQLSSPTSEDSAVYYCTRSWRGNSFDYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCAAAENLYFQGDYKDDDDKHHHHHHHHHH

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

Entity 3 polymer

description	Fab of Zolbetuximab - Light chain
formula_weight	24194.8 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

DIVMTQSPSSLTVTAGEKVTMSCKSSQSLLNSGNQKNYLTWYQQKPGQPPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDYSYPFTFGSGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Escherichia coli

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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	4.10 Å
resolution_method	—
num_particles	296899

fit	/app/data/saxs_computation/v3/9v32/9v32.fit
pddf	/app/data/pr_computation/v3/9v32/9v32.pr.out
profile	/app/data/saxs_computation/v3/9v32/9v32.dat

Human claudin 18.2 in complex with the Fab fragment of Zolbetuximab

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 (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)