9QVN image
Deposition Date 2025-04-11
Release Date 2025-05-21
Last Version Date 2025-06-04
Entry Detail
PDB ID:
9QVN
Title:
Cryo-EM reconstruction of the NEDD1 anchor protein bound to the gamma-tubulin ring complex
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
4.70 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Gamma-tubulin complex component 3
Gene (Uniprot):TUBGCP3
Chain IDs:A (auth: D), B (auth: F), C (auth: H), Y (auth: r), Z (auth: s), AA (auth: t), BA (auth: u), CA (auth: v), DA (auth: B), FA (auth: N)
Chain Length:457
Number of Molecules:10
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Isoform 3 of Gamma-tubulin complex component 2
Gene (Uniprot):TUBGCP2
Chain IDs:JA (auth: G), LA (auth: M), MA (auth: C), OA (auth: A), PA (auth: E)
Chain Length:457
Number of Molecules:5
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Gamma-tubulin complex component 5
Gene (Uniprot):TUBGCP5
Chain IDs:NA (auth: J)
Chain Length:457
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Gamma-tubulin complex component 4
Gene (Uniprot):TUBGCP4
Chain IDs:EA (auth: K), QA (auth: I)
Chain Length:667
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:TUBGCP6 protein
Chain IDs:KA (auth: L)
Chain Length:1811
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Mitotic-spindle organizing protein 1
Gene (Uniprot):MZT1
Chain IDs:D (auth: P), E (auth: R), F (auth: S), G (auth: T), H (auth: U), RA (auth: O), SA (auth: Q)
Chain Length:82
Number of Molecules:7
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Protein NEDD1
Gene (Uniprot):NEDD1
Chain IDs:I (auth: W), J (auth: X), HA (auth: V), IA (auth: Y)
Chain Length:907
Number of Molecules:4
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Actin, cytoplasmic 1, N-terminally processed
Gene (Uniprot):ACTB
Chain IDs:K (auth: Z)
Chain Length:375
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Tubulin gamma-1 chain
Gene (Uniprot):TUBG1
Chain IDs:L (auth: a), M (auth: b), N (auth: c), O (auth: e), P (auth: f), Q (auth: g), R (auth: h), S (auth: i), T (auth: j), U (auth: k), V (auth: l), W (auth: m), X (auth: n), GA (auth: d)
Chain Length:457
Number of Molecules:14
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structure of the microtubule-anchoring factor NEDD1 bound to the gamma-tubulin ring complex.
J.Cell Biol. 224 ? ? (2025)
PMID: 40396914 DOI: 10.1083/jcb.202410206

Abstact

The γ-tubulin ring complex (γ-TuRC) is an essential multiprotein assembly that provides a template for microtubule nucleation. The γ-TuRC is recruited to microtubule-organizing centers (MTOCs) by the evolutionarily conserved attachment factor NEDD1. However, the structural basis of the NEDD1-γ-TuRC interaction is not known. Here, we report cryo-EM structures of NEDD1 bound to the human γ-TuRC in the absence or presence of the activating factor CDK5RAP2. We found that the C-terminus of NEDD1 forms a tetrameric α-helical assembly that contacts the lumen of the γ-TuRC cone and orients its microtubule-binding domain away from the complex. The structure of the γ-TuRC simultaneously bound to NEDD1 and CDK5RAP2 reveals that both factors can associate with the "open" conformation of the complex. Our results show that NEDD1 does not induce substantial conformational changes in the γ-TuRC but suggest that anchoring of γ-TuRC-capped microtubules by NEDD1 would be structurally compatible with the significant conformational changes experienced by the γ-TuRC during microtubule nucleation.

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Primary Citation of related structures