SAXSdb — 9w3k

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1. Structure Basics

entry_id	9w3k
deposition_date	2025-07-29
title	GPR151-Legobody complex
keywords	orphan GPCR, cryo-EM, Legobody, 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	49.83 Å
rg_electron	50.97 Å
i0	243540000.00
molecular_weight	132090.0 kDa
excluded_volume	166610 Å³
envelope_volume	254690 Å³
shell_volume	45583 Å³
envelope_diameter	163.5 Å
shell_rg	47.49 Å
envelope_rg	50.52 Å
shape_rg	51.01 Å
total_rg	50.69 Å
total_atoms	9329
n_residues	1222
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	164.6 Å
rg_real	50.13 Å
rg_real_error	1.89 Å
i0_real	2.4350e+08
i0_real_error	5.0200e+06
rg_reciprocal	49.84 Å
i0_reciprocal	243400000.0000
total_estimate	0.8307
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	30.9 Å
skewness	0.229
kurtosis	-0.846
angular_range	— – 0.1600 Å⁻¹
current_alpha	0.0000
highest_alpha	13330000.0000
n_real_points	33
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.831; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.753; Smooth: 0.548

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Maltose/maltodextrin-binding periplasmic protein,Immunoglobulin G-binding protein A,Immunoglobulin G-binding protein G
formula_weight	60575.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C
atom_count	9329

MGSSHHHHHHSSGLVPRGSHMKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDQALAFAQILIMPNLTEEQRNGFIQSLKDDPSVSKEILAEAKKLNEHQAPKGGSGGAGSGDQQSAFYEILNMPNLNEAQRNGFIQSLKDDPSQSTNVLGEAKKLNESQAGGGSGGGSGGSAVTTYKLVINGKTLKGETTTKAVDAETAEKAFKQYANDNGVDGVWTYDDATKTFTVTEGSG

Source

organism	;Streptococcus sp. 'group G' ;
ncbi_taxonomy_id	1320
host_organism	Escherichia coli BL21

Entity 2 polymer

description	Fab-8D3-2-H-His
formula_weight	27396.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

MDWTWRVFCLLAVAPGAHSDVQLVESGGGLVQPGKSLRLSCAASGFTFSNFGMHWVRQAPEMGLEWVAYISSGSTTKYYGDTVKGRFTISRDNPKNTLYLQMNSLRSEDTAMYYCARRPLYDGDYGYPMDYWGQGTSVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCGSHHHHHH

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Fab_8D3_L
formula_weight	26317.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

MVLQTQVFISLLLWISGAYGNIMLTQSPSSLAVSAGERVTMSCKSTQSILYNSNQKTYLAWYQQKPGQSPKLLIYWASTRASGVPDRFTGSGSGTDFTLTINSVQPEDLAVYYCHQYLSAWTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 4 polymer

description	G-protein coupled receptor 151
formula_weight	46708.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A

MLAAAFADSNSSSMNVSFAHLHFAGGYLPSDSQDWRTIIPALLVAVCLVGFVGNLCVIGILLHNAWKGKPSMIHSLILNLSLADLLLLLFSAPIRATAYSKSVWDLGWFVCKSSDWFIHTCMAAKSWTIVVVAKVCFMYASDPAKQVSIHNYTIWSVLVAIWTVASLLPLPEWFFSTIRHHEGVEMCLVDVPAVAEEFMAMFGKLYPLLAFGLPLFFASFYYTLMILRLKSVRLLSGSREKDRNLRRITRLVLSIAIISALLWLPEWVAWLWVWHLKAAGPAPPQGFIALSQVLMFSISAANPLIFLVMSEEFREGLKGVWKWMITKKPPTVSESQETPAGNSEGLPDKVPSPESPASIPEKEKPSSPSSGKGKTEKAEIPILPDVEQFWHERDTVPSVQDNDPIPWEHEDQETGEGVK

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 5 polymer

description	NB6
formula_weight	14057.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MQVQLQESGGGLVQAGESLRLSCAASGTIFRLYDMGWYRRAPGKQRELVASITSGGSTKYGDSVKGRFTISRDNAKNTVYLQMSSLKPEDTAVYYCNAEYRTGIWEELLDGWGQGTQVTVSSLEHHH

Source

organism	Spodoptera frugiperda
ncbi_taxonomy_id	7108
host_organism	Spodoptera frugiperda

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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	3.080 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.08 Å
resolution_method	—
num_particles	869552

fit	/app/data/saxs_computation/w3/9w3k/9w3k.fit
pddf	/app/data/pr_computation/w3/9w3k/9w3k.pr.out
profile	/app/data/saxs_computation/w3/9w3k/9w3k.dat

GPR151-Legobody 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

Refinement

EM 3D

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)