11HT | pdb_000011ht

Cryo-EM structure of the human ZNFX1 tetramer

PDB DOI: https://doi.org/10.2210/pdb11HT/pdb
EM Map EMD-75702: EMDB EMDataResource

Classification: RNA
Organism(s): Homo sapiens
Expression System: Homo sapiens environmental sample
Mutation(s): No

Deposited: 2026-02-25 Released: 2026-10-07
Deposition Author(s): Wang, F., He, Q., Li, H.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.71 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 11HT

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

Literature

Cryo-EM structures of autoinhibited and RNA-activated ZNFX1 helicase

He, Q., Wang, F., Rassool, F.V., Baylin, S.B., Li, H.

(2026) Nat Commun

DOI: https://doi.org/10.1038/s41467-026-78145-0

Macromolecule Content

Total Structure Weight: 1,325.31 kDa
Atom Count: 44,040
Modeled Residue Count: 5,472
Deposited Residue Count: 11,508
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NFX1-type zinc finger-containing protein 1	A, B, C, D, E A, B, C, D, E, F	1,918	Homo sapiens	Mutation(s): 0 Gene Names: ZNFX1, KIAA1404 EC: 3.6.4 (UniProt), 2.3.2.27 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9P2E3 (Homo sapiens) Explore Q9P2E3 Go to UniProtKB: Q9P2E3
PHAROS: Q9P2E3 GTEx: ENSG00000124201
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9P2E3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AGS (Subject of Investigation/LOI) Query on AGS Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth B] SDF format, chain I [auth C] SDF format, chain J [auth D] MOL2 format, chain G [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth C] MOL2 format, chain J [auth D] mmCIF format, chain G [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth C] mmCIF format, chain J [auth D]	G [auth A], H [auth B], I [auth C], J [auth D]	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER C₁₀ H₁₆ N₅ O₁₂ P₃ S NLTUCYMLOPLUHL-KQYNXXCUSA-N		Interactions Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain J [auth D] Interactions & Density Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain J [auth D]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.71 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM131754

Revision History (Full details and data files)

Version 1.0: 2026-10-07
Type: Initial release