Cryo-EM structure of the tomato NRC3 hexameric resistosome

Method: ELECTRON MICROSCOPY D_max: 188.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ri9
deposition_date	2025-06-11
title	Cryo-EM structure of the tomato NRC3 hexameric resistosome
keywords	Plant Immunity, NLR, Resistosome, IMMUNE SYSTEM; 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	57.46 Å
rg_electron	57.22 Å
i0	4836390000.00
molecular_weight	595530.0 kDa
excluded_volume	749900 Å³
envelope_volume	1108800 Å³
shell_volume	152540 Å³
envelope_diameter	185.4 Å
shell_rg	65.90 Å
envelope_rg	56.49 Å
shape_rg	57.23 Å
total_rg	57.37 Å
total_atoms	41886
n_residues	5208
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	188.3 Å
rg_real	57.23 Å
rg_real_error	1.18 Å
i0_real	4.8360e+09
i0_real_error	9.1560e+07
rg_reciprocal	57.64 Å
i0_reciprocal	4839000000.0000
total_estimate	0.8672
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	69.8 Å
skewness	0.237
kurtosis	-0.362
angular_range	— – 0.1350 Å⁻¹
current_alpha	0.0001
highest_alpha	836500000.0000
n_real_points	28
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.837; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.781

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

Entity 1 polymer

description	NRC3
formula_weight	104764.0 kDa
mutation	L9E, L13E, L17E
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	B,D,G,I,J,L
atom_count	41886

MADVAVKFELENETQLEIDNADLILGIQGEVENLLTDLNYFNAFLKEAAKSRRENEVLKELVKKIRKVVNDAEDSIDKFVVEAKRHDDKNKFAQWFHITHVARAKGVADEIKSIRERVKEIRDNDAYGLQAITLDDNFNRGDEERKAPVVEEDDVVGFDDEAKTVIDRLIGGSDYVEVVPVVGMPGLGKTTLAYKIYKDPKVEYEFFTRVWVYVSQTFKRREIFLNIISKFTRNTKQYDDTPEDDLANEVKELLGKGGKYLIVLDDVWTMEAWDRIKIAFPNNGKRNRVLMTTRQSNVAKRCNDKPHDLKFLTKDESWELLEKKVFHKEKCPPELELPGISIAEKCMGLPLAIVVIAGALIGKGKTTREWELVAASVGEHLINRDPENCKKLVQMSYDRLPYDLKACFLYCGAFPGGSQIPAKKLIRLWIAEGFIQYQGPLALEDVAEDHLNDLVNRNLVMVTQRSCSGQIKTCRVHDMLHEFCRHEAMMEENLFQEIKQGQERSFPGKQELATYRRLCIQSLIPEFLSMKPSGEHVRSFLCVGSKKIDMPPNEIPSIPKAFPLLRVLDAESIKFSRFSREFFKLFHLRYIALSTDKIKTIPADFGNLWNIQTLIVETQQATLDIKADIWNMTRLRHVCTNASATLPSTKRPKSSKDNLVNRCLQTLSTIAPECCTAEVFTRTPNLKKLGVRGKIDALLESSKDGSGSGLFSNIGKLGCLEYLKLVNDTRLSSKPLHLPPAYIFPQKLKKLSLVDTWFEWKDMSILGLLPELEVLKLKENAFKGQSWEQEDGGFPRLQVLWIERTDLTSWKASSGNFPRLKHLALISCDKLEELPAELADVKNLQLIELQSSSESAARSARAILKRNQEKEQDGDKGTGFKLSIFPHDLGLSDYKDHDGDYKDHDLDAAAADYKDDDDK

Source

organism	Solanum lycopersicum
common_name	tomato
ncbi_taxonomy_id	4081
host_organism	Nicotiana benthamiana

Entity 2 non-polymer

description	ADENOSINE-5'-TRIPHOSPHATE
formula_weight	507.2 kDa
src_method	syn
entity_count	6

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6. Citations (2)

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resolution	2.85 Å
resolution_method	—
num_particles	234243

fit	/app/data/saxs_computation/ri/9ri9/9ri9.fit
pddf	/app/data/pr_computation/ri/9ri9/9ri9.pr.out
profile	/app/data/saxs_computation/ri/9ri9/9ri9.dat