SAXSdb — 9wpm

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1. Structure Basics

entry_id	9wpm
deposition_date	2025-09-09
title	Cryo-EM structure of the apo-ConsOR5-Gs complex
keywords	OR5 family, receptor, 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	37.10 Å
rg_electron	36.78 Å
i0	233753000.00
molecular_weight	123640.0 kDa
excluded_volume	154260 Å³
envelope_volume	201230 Å³
shell_volume	46496 Å³
envelope_diameter	121.0 Å
shell_rg	41.68 Å
envelope_rg	36.86 Å
shape_rg	36.82 Å
total_rg	36.95 Å
total_atoms	8731
n_residues	1236
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	120.6 Å
rg_real	37.07 Å
rg_real_error	0.95 Å
i0_real	2.3380e+08
i0_real_error	4.1300e+06
rg_reciprocal	37.09 Å
i0_reciprocal	233800000.0000
total_estimate	0.9011
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	44.9 Å
skewness	0.228
kurtosis	-0.604
angular_range	— – 0.2150 Å⁻¹
current_alpha	0.0000
highest_alpha	35140000.0000
n_real_points	44
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.938; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.969; Smooth: 0.927

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Consensus OR5 Olfactory receptor
formula_weight	35148.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	8731

MEENHTEVTEFILLGLTDDPELQVPLFLVFLAIYLITLVGNLGMIVLIRIDSHLHTPMYFFLSNLSFVDACYSSAVTPKMLVNFLSEDKTISFSGCAVQFFFFCTFVTTECFLLAAMAYDRYVAICNPLLYTVIMSKRVCIRLVTGSYVAGFLNALIHTGLTFRLSFCGSNEINHFFCDIPPLLKLSCSDTSINELLLFIFAGFIQIFTILIILISYLFILITILKMRSAEGRRKAFSTCASHLTAVTLFYGTLLFMYLRPSSSYSLDQDKVASVFYTVVIPMLNPLIYSLRNKDVKEALKKVLKKKKFS

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	Guanine nucleotide-binding protein G(s) subunit alpha isoforms short
formula_weight	42010.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MMGCTLSAEDKAAVERSKMIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQMRIYHVNGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTSGIFETKFQVDKVNFHMFDVGAQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALNDFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCSVDTENARRIFNDCRDIIQRMHLRQYELL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 3 polymer

description	Nanobody-35
formula_weight	13885.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	N

QVQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQGTQVTVSS

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
host_organism	Escherichia

Entity 4 polymer

description	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
formula_weight	37915.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MGSLLQSELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 5 polymer

description	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
formula_weight	7861.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	Y

MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFFCAIL

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 6 polymer

description	scFv16
formula_weight	30363.0 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	S

MLLVNQSHQGFNKEHTSKMVSAIVLYVLLAAAAHSAFAVQLVESGGGLVQPGGSRKLSCSASGFAFSSFGMHWVRQAPEKGLEWVAYISSGSGTIYYADTVKGRFTISRDDPKNTLFLQMTSLRSEDTAMYYCVRSIYYYGSSPFDFWGQGTTLTVSAGGGGSGGGGSGGGGSADIVMTQATSSVPVTPGESVSISCRSSKSLLHSNGNTYLYWFLQRPGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLTISRLEAEDVGVYYCMQHLEYPLTFGAGTKLEL

Source

organism	synthetic construct
ncbi_taxonomy_id	32630
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	2.600 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.60 Å
resolution_method	—
num_particles	291664

fit	/app/data/saxs_computation/wp/9wpm/9wpm.fit
pddf	/app/data/pr_computation/wp/9wpm/9wpm.pr.out
profile	/app/data/saxs_computation/wp/9wpm/9wpm.dat

Cryo-EM structure of the apo-ConsOR5-Gs 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 (6)

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

Entity 6 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)