SAXSdb — 9s38

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1. Structure Basics

entry_id	9s38
deposition_date	2025-07-23
last_revision	2025-09-03
title	Structure of LGR4 with NB21
keywords	LGR4, nanobody, 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	45.41 Å
rg_electron	46.38 Å
i0	154083000.00
molecular_weight	104450.0 kDa
excluded_volume	131980 Å³
envelope_volume	205610 Å³
shell_volume	39355 Å³
envelope_diameter	166.3 Å
shell_rg	46.81 Å
envelope_rg	45.34 Å
shape_rg	46.36 Å
total_rg	46.47 Å
total_atoms	7361
n_residues	959
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	159.6 Å
rg_real	46.00 Å
rg_real_error	1.91 Å
i0_real	1.5410e+08
i0_real_error	2.8040e+06
rg_reciprocal	45.42 Å
i0_reciprocal	154000000.0000
total_estimate	0.7590
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.9 Å
skewness	0.472
kurtosis	-0.612
angular_range	— – 0.1750 Å⁻¹
current_alpha	0.0000
highest_alpha	10450000.0000
n_real_points	36
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.611; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.363; Smooth: 0.668

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	NB21
formula_weight	13099.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B
atom_count	7364

VALAESGGGSVAAGGAIRLSCTASGYTYSKYCMGWFRQAPGAERAGVSGITTGGLSPYYADSVAGRFTISRDNIANTLYLQMNSLAPADTAMYYCAASRLSCSAADFKDFRNFVYWGQGTQVTSA

Source

organism	Camelus bactrianus
ncbi_taxonomy_id	9837
host_organism	Escherichia coli

Entity 2 polymer

description	Leucine-rich repeat-containing G-protein coupled receptor 4
formula_weight	87469.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

PCSCDGDRRVDCSGKGLTAVPEGLSAFTQALDISMNNITQLPEDAFANFPFLEELQLAGNDLSFIHPKALSGLKELKVLTLQNNQLKTVPSEAIRGLSALQSLRLDANHITSVPEDSFEGLVQLRHLWLDDNSLTEVPVHPLSNLPTLQALTLALNKISSIPDFAFTNLSSLVVLHLHNNKIRSLSQHCFDGLDNLETLDLNYNNLGEFPQAIKALPSLKELGFHSNSISVIPDGAFDGNPLLRTIHLYDNPLSFVGNSAFHNLSDLHSLVIRGASMVQQFPNLTGTVHLESLTLTGTKISSIPNNLCQEQKMLRTLDLSYNNIRDLPSFNGCHALEEISLQRNQIYQIKEGTFQGLISLRILDLSRNLIHEIHSRAFATLGPITNLDVSFNELTSFPTEGLNGLNQLKLVGNFKLKEALAAKDFVNLRSLSVPYAYQCCAFAGCDSYANLNTEDNSLQDHSVAQEKGTADAANVTSTLENEEHSQIIIHCTPSTGAFKPCEYLLGSWMIRLTVWFIFLVALFFNLLVILTTFASCTSLPSSKLFIGLISVSNLFMGIYTGILTFLDAVSWGRFAEFGIWWETGSGCKVAGFLAVFSSESAIFLLMLATVERSLSAKDIMKNGKSNHLKQFRVAALLAFLGATVAGCFPLFHRGEYSASPLCLPFPGGETPSLGFTVTLVLLNSLAFLLMAVIYTKLYCNLEKEDLSENSQSSMIKHVAWLIFTNCIFFCPVAFFSFAPLITAISISPEIMKSVTLIFFPLPACLNPVLYVFFNPKFKEDWKLLKRRVTKKS

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	NB52
formula_weight	10461.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

YSPYCMGWFRQAPGKAREGVATVDLDGSTIYADSVKGRFTISQDNAKNTLYLQMNSLKPEDTAMYYCASRTRAGVTCGLNWAIFSYWGQGTQVT

Source

organism	Camelus bactrianus
ncbi_taxonomy_id	9837
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	3.94 Å
resolution_method	—
num_particles	116975

fit	/app/data/saxs_computation/s3/9s38/9s38.fit
pddf	/app/data/pr_computation/s3/9s38/9s38.pr.out
profile	/app/data/saxs_computation/s3/9s38/9s38.dat

Structure of LGR4 with NB21

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)