← Back to search

9tqk

Cryo-EM structure of AtubAB mini microtubules from Heimdallarchaeia

Method: ELECTRON MICROSCOPY D_max: 216.6 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9tqk
deposition_date	2025-12-22
title	Cryo-EM structure of AtubAB mini microtubules from Heimdallarchaeia
keywords	Microtubules, BtubAB, cytoskeleton, asgard archaea, eukaryogenesis, UNKNOWN FUNCTION; UNKNOWN FUNCTION
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	68.14 Å
rg_electron	68.00 Å
i0	7715070000.00
molecular_weight	743130.0 kDa
excluded_volume	929120 Å³
envelope_volume	1413900 Å³
shell_volume	171720 Å³
envelope_diameter	234.2 Å
shell_rg	72.05 Å
envelope_rg	65.00 Å
shape_rg	68.02 Å
total_rg	67.98 Å
total_atoms	52344
n_residues	6712
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

▼

3. P(r) Analysis (GNOM)

dmax	216.6 Å
rg_real	67.98 Å
rg_real_error	1.84 Å
i0_real	7.7150e+09
i0_real_error	1.4430e+08
rg_reciprocal	68.63 Å
i0_reciprocal	7724000000.0000
total_estimate	0.5958
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	84.7 Å
skewness	0.240
kurtosis	-0.169
angular_range	— – 0.1150 Å⁻¹
current_alpha	0.0000
highest_alpha	295700000.0000
n_real_points	24
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.774; Stabil: 0.999; Sysdev: 0.002; Positv: 1.000; Valcen: 0.955; Smooth: 0.464

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	AtubA
formula_weight	48279.4 kDa
src_method	man
entity_count	8

Polymer

type	polypeptide(L)
strand_id	1A,2A,3A,4A,5A,6A,7A,8A
atom_count	52344

MSEVVVVAVGQAGNQIADQFWQLIAQEHKIGLDGMPTNGEPTGRTDVFFRKVSNRYVPRAVLVDLEPAVLKSVSDDAKPNFYDPKNKVHGADGAGNNFAVGHTEMGAQYLEQVIGKIKNEVEKTDSLGGFIVTHSVGGGTGSGFGTLIMQNIRKEYPNTPLLSFSIYPSPRISDVLTEPYNAIFSSYRLVRDTSCSIIYDNDALYTICQNLGIAEPTYSDLNKLISQSMVNITAGMRFVGTLNLDLRKLITNLVPHPRLHFLMTSTAPLVESGGFDSQSIEKTAEVLFEKSNIQAQVNTEDGAYISTTVLFRGNVNPADMDTALRAMKQKLKFVSFIPTGFKTGLSATAPNNMEFAAALVANHTGITQVFKRILGQFDKLWSRKAFSHWYTDSGLTEEDIVNARNDIAKLVEEYEETLKFKSKDKSGEEVAAAEIAENK

Source

organism	Candidatus Heimdallarchaeota archaeon
ncbi_taxonomy_id	2026747
host_organism	Escherichia coli BL21(DE3)

Entity 2 polymer

description	AtubB
formula_weight	46275.1 kDa
src_method	man
entity_count	8

Polymer

type	polypeptide(L)
strand_id	1B,2B,3B,4B,5B,6B,7B,8B

MSREIISIHVGQAGLQVGAAFWRTVLEEHGLGNDGSVVDASKEKSAVYFKQAGNNKFVPRAILVDLEPMVIKTIMNDLPGLFDPAYTIHGQSGAANNWARGYRGADGEVNVDDVLKIVEKAVSETDSLQGFSISHSIGGGTGSGLGSQILKKLKETYPKYPIITFSVFPSPLISDAVTEPYNSVFALDHLIEYADETIVLDNHALYNLTKNNMGIKSPSYADLNKIISWVMSGVTASLRFKGDLNTDLKELLVNLVPFPRQHFLTSTFSPIKNGTGSFEEVTTHDIINQLFDPNNAMSDTNFDEGAYIASVVMMRGHEVKTNAVNSSLAEIKGKLRFSEFIPTGIKTGVTSETLVGFESTGLNLSNHTGITKVFKRLAAQFDAMYERDAFVHWYLGEGMSKDDMEKARENLGKLTTEYDTSV

Source

organism	Candidatus Heimdallarchaeota archaeon
ncbi_taxonomy_id	2026747
host_organism	Escherichia coli BL21(DE3)

Entity 3 non-polymer

description	GUANOSINE-5'-DIPHOSPHATE
formula_weight	443.2 kDa
src_method	syn
entity_count	16

▶

6. Citations (1)

▶

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	3.10 Å
resolution_method	—
num_particles	61534

fit	/app/data/saxs_computation/tq/9tqk/9tqk.fit
pddf	/app/data/pr_computation/tq/9tqk/9tqk.pr.out
profile	/app/data/saxs_computation/tq/9tqk/9tqk.dat

Cryo-EM structure of AtubAB mini microtubules from Heimdallarchaeia

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 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)