9TQK | pdb_00009tqk

Cryo-EM structure of AtubAB mini microtubules from Heimdallarchaeia

PDB DOI: https://doi.org/10.2210/pdb9TQK/pdb
EM Map EMD-56153: EMDB EMDataResource

Classification: UNKNOWN FUNCTION
Organism(s): Candidatus Heimdallarchaeota archaeon
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-12-22 Released: 2026-06-10
Deposition Author(s): Lowe, J., von Kugelgen, A.
Funding Organization(s): Medical Research Council (MRC, United Kingdom), Wellcome Trust

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: HELICAL ARRAY
Reconstruction Method: HELICAL

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Asgard archaeal AtubAB tubulins form mini microtubules exhibiting dynamic instability

Lowe, J., von Kugelgen, A.

To be published.

Macromolecule Content

Total Structure Weight: 763.53 kDa
Atom Count: 52,344
Modeled Residue Count: 6,712
Deposited Residue Count: 6,888
Unique protein chains: 2

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AtubA	A [auth 1A] B [auth 2A] C [auth 3A] D [auth 4A] I [auth 5A] A [auth 1A], B [auth 2A], C [auth 3A], D [auth 4A], I [auth 5A], J [auth 6A], K [auth 7A], L [auth 8A]	439	Candidatus Heimdallarchaeota archaeon	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
AtubB	E [auth 1B] F [auth 2B] G [auth 3B] H [auth 4B] M [auth 5B] E [auth 1B], F [auth 2B], G [auth 3B], H [auth 4B], M [auth 5B], N [auth 6B], O [auth 7B], P [auth 8B]	422	Candidatus Heimdallarchaeota archaeon	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GDP (Subject of Investigation/LOI) Query on GDP Download:Ideal Coordinates CCD File SDF format, chain AA [auth 7A] SDF format, chain BA [auth 8A] SDF format, chain CA [auth 5B] SDF format, chain DA [auth 6B] SDF format, chain EA [auth 7B] SDF format, chain FA [auth 8B] SDF format, chain Q [auth 1A] SDF format, chain R [auth 2A] SDF format, chain S [auth 3A] SDF format, chain T [auth 4A] SDF format, chain U [auth 1B] SDF format, chain V [auth 2B] SDF format, chain W [auth 3B] SDF format, chain X [auth 4B] SDF format, chain Y [auth 5A] SDF format, chain Z [auth 6A] MOL2 format, chain AA [auth 7A] MOL2 format, chain BA [auth 8A] MOL2 format, chain CA [auth 5B] MOL2 format, chain DA [auth 6B] MOL2 format, chain EA [auth 7B] MOL2 format, chain FA [auth 8B] MOL2 format, chain Q [auth 1A] MOL2 format, chain R [auth 2A] MOL2 format, chain S [auth 3A] MOL2 format, chain T [auth 4A] MOL2 format, chain U [auth 1B] MOL2 format, chain V [auth 2B] MOL2 format, chain W [auth 3B] MOL2 format, chain X [auth 4B] MOL2 format, chain Y [auth 5A] MOL2 format, chain Z [auth 6A] mmCIF format, chain AA [auth 7A] mmCIF format, chain BA [auth 8A] mmCIF format, chain CA [auth 5B] mmCIF format, chain DA [auth 6B] mmCIF format, chain EA [auth 7B] mmCIF format, chain FA [auth 8B] mmCIF format, chain Q [auth 1A] mmCIF format, chain R [auth 2A] mmCIF format, chain S [auth 3A] mmCIF format, chain T [auth 4A] mmCIF format, chain U [auth 1B] mmCIF format, chain V [auth 2B] mmCIF format, chain W [auth 3B] mmCIF format, chain X [auth 4B] mmCIF format, chain Y [auth 5A] mmCIF format, chain Z [auth 6A]	AA [auth 7A] BA [auth 8A] CA [auth 5B] DA [auth 6B] EA [auth 7B] AA [auth 7A], BA [auth 8A], CA [auth 5B], DA [auth 6B], EA [auth 7B], FA [auth 8B], Q [auth 1A], R [auth 2A], S [auth 3A], T [auth 4A], U [auth 1B], V [auth 2B], W [auth 3B], X [auth 4B], Y [auth 5A], Z [auth 6A]	GUANOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₁ P₂ QGWNDRXFNXRZMB-UUOKFMHZSA-N		Interactions Focus chain AA [auth 7A] Focus chain BA [auth 8A] Focus chain CA [auth 5B] Focus chain DA [auth 6B] Focus chain EA [auth 7B] Focus chain FA [auth 8B] Focus chain Q [auth 1A] Focus chain R [auth 2A] Focus chain S [auth 3A] Focus chain T [auth 4A] Focus chain U [auth 1B] Focus chain V [auth 2B] Focus chain W [auth 3B] Focus chain X [auth 4B] Focus chain Y [auth 5A] Focus chain Z [auth 6A] Interactions & Density Focus chain AA [auth 7A] Focus chain BA [auth 8A] Focus chain CA [auth 5B] Focus chain DA [auth 6B] Focus chain EA [auth 7B] Focus chain FA [auth 8B] Focus chain Q [auth 1A] Focus chain R [auth 2A] Focus chain S [auth 3A] Focus chain T [auth 4A] Focus chain U [auth 1B] Focus chain V [auth 2B] Focus chain W [auth 3B] Focus chain X [auth 4B] Focus chain Y [auth 5A] Focus chain Z [auth 6A]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: HELICAL ARRAY
Reconstruction Method: HELICAL

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	5.0

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-06-10

Deposition Author(s):

Lowe, J.

von Kugelgen, A.

Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	U105184326
Wellcome Trust	United Kingdom	203276/C/16/Z
Wellcome Trust	United Kingdom	227876/Z/23/Z
Wellcome Trust	United Kingdom	227452/Z/23/Z