9I2B image
Deposition Date 2025-01-20
Release Date 2025-09-03
Last Version Date 2025-09-24
Entry Detail
PDB ID:
9I2B
Title:
SPIN90-Arp2/3 nucleated bidirectional actin filaments
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Sus scrofa (Taxon ID: 9823)
Amanita phalloides (Taxon ID: 67723)
Method Details:
Experimental Method:
Resolution:
3.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 3
Gene (Uniprot):ACTR3
Chain IDs:L (auth: A), X (auth: K)
Chain Length:418
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2
Gene (Uniprot):ACTR2
Chain IDs:A (auth: B), M (auth: L)
Chain Length:394
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2/3 complex subunit 1B
Gene (Uniprot):ARPC1B
Chain IDs:K (auth: C), W (auth: M)
Chain Length:7
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2/3 complex subunit 2
Gene (Uniprot):ARPC2
Chain IDs:B (auth: D), N
Chain Length:7
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2/3 complex subunit 3
Gene (Uniprot):ARPC3
Chain IDs:C (auth: E), O
Chain Length:178
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2/3 complex subunit 4
Gene (Uniprot):ARPC4
Chain IDs:D (auth: F), P
Chain Length:168
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 2/3 complex subunit 5-like protein
Gene (Uniprot):ARPC5L
Chain IDs:E (auth: G), Q
Chain Length:153
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NCK-interacting protein with SH3 domain
Gene (Uniprot):NCKIPSD
Chain IDs:J (auth: H), V (auth: R)
Chain Length:722
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin, cytoplasmic 1
Gene (Uniprot):ACTB
Chain IDs:F (auth: I), G (auth: J), R (auth: S), S (auth: T)
Chain Length:375
Number of Molecules:4
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:Phalloidin
Chain IDs:H (auth: c), I (auth: d), T (auth: U), U (auth: V)
Chain Length:7
Number of Molecules:4
Biological Source:Amanita phalloides
Primary Citation
Arp2/3-mediated bidirectional actin assembly by SPIN90 dimers.
Nat.Struct.Mol.Biol. ? ? ? (2025)
PMID: 40954369 DOI: 10.1038/s41594-025-01665-8

Abstact

Branched actin networks nucleated by the Arp2/3 complex have critical roles in various cellular processes, from cell migration to intracellular transport. However, when activated by WISH/DIP/SPIN90-family proteins, Arp2/3 nucleates linear actin filaments. Here we found that human SPIN90 is a dimer that can nucleate bidirectional actin filaments. To understand the basis for this, we determined a 3-Å-resolution structure of human SPIN90-Arp2/3 complex nucleating actin filaments. Our structure shows that SPIN90 dimerizes through a three-helix bundle and interacts with two Arp2/3 complexes. Each SPIN90 molecule binds both Arp2/3 complexes to promote their activation. Our analysis demonstrates that single-filament nucleation by Arp2/3 is mechanistically more like branch formation than previously appreciated. The dimerization domain in SPIN90 orthologs is conserved in metazoans, suggesting that this mode of bidirectional nucleation is a common strategy to generate antiparallel actin filaments.

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