9T24 | pdb_00009t24

High-resolution crystal structure of the G3BP1 NTF2L domain homodimer with alternate F124 conformations

PDB DOI: https://doi.org/10.2210/pdb9T24/pdb

Classification: RNA BINDING PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-10-22 Released: 2026-10-07
Deposition Author(s): Firdaus, M.E.R., Gerlach, P.
Funding Organization(s): European Molecular Biology Organization (EMBO), Polish National Science Centre

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free:
0.200 (Depositor), 0.200 (DCC)
R-Value Work:
0.191 (Depositor), 0.191 (DCC)
R-Value Observed:
0.191 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

LACV NP localizes into stress granules and interacts there with G3BP1

Firdaus, M.E.R., Gerlach, P.

To be published.

Macromolecule Content

Total Structure Weight: 32.31 kDa
Atom Count: 2,387
Modeled Residue Count: 264
Deposited Residue Count: 282
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ras GTPase-activating protein-binding protein 1	A, B	141	Homo sapiens	Mutation(s): 0 Gene Names: G3BP1, G3BP EC: 3.6.4.12 (PDB Primary Data), 3.6.4.13 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q13283 (Homo sapiens) Explore Q13283 Go to UniProtKB: Q13283
PHAROS: Q13283 GTEx: ENSG00000145907
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q13283
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B], E [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Focus chain D [auth B] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B] Focus chain E [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free: 0.200 (Depositor), 0.200 (DCC)
R-Value Work: 0.191 (Depositor), 0.191 (DCC)
R-Value Observed: 0.191 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.319	α = 90
b = 76.199	β = 90
c = 81.965	γ = 90

Software Package:

Software Name	Purpose
autoPROC	data processing
XDS	data reduction
pointless	data scaling
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
Coot	model building

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Firdaus, M.E.R.

Funding Organization	Location	Grant Number
European Molecular Biology Organization (EMBO)	European Union	IG 4742
Polish National Science Centre	Poland	2022/46/E/NZ1/00273

Revision History (Full details and data files)

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