← Back to search

9tqj

Cryo-EM structure of AtubAB heterodimer from Heimdallarchaeia

Method: ELECTRON MICROSCOPY D_max: 95.5 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9tqj
deposition_date	2025-12-22
title	Cryo-EM structure of AtubAB heterodimer 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	28.90 Å
rg_electron	27.98 Å
i0	116180000.00
molecular_weight	85391.0 kDa
excluded_volume	107110 Å³
envelope_volume	133130 Å³
shell_volume	38645 Å³
envelope_diameter	97.1 Å
shell_rg	36.26 Å
envelope_rg	28.23 Å
shape_rg	27.99 Å
total_rg	28.78 Å
total_atoms	6016
n_residues	774
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	95.5 Å
rg_real	28.85 Å
rg_real_error	0.57 Å
i0_real	1.1620e+08
i0_real_error	1.6140e+06
rg_reciprocal	28.87 Å
i0_reciprocal	116200000.0000
total_estimate	0.8854
solution_quality	GOOD a GOOD solution
n_peaks	0
r_peak_primary	— Å
skewness	0.318
kurtosis	-0.398
angular_range	— – 0.2750 Å⁻¹
current_alpha	0.0000
highest_alpha	45610000.0000
n_real_points	56
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.840; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.991

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	AtubA
formula_weight	48279.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	6016

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	1

Polymer

type	polypeptide(L)
strand_id	B

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	1

▶

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	3.500 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.50 Å
resolution_method	—
num_particles	125647

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

Cryo-EM structure of AtubAB heterodimer 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

Refinement

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)