ISDA

Entry Detail

PDB ID:

8RKI

Keywords:

STRUCTURAL PROTEIN

Title:

Molecular basis of ZP3/ZP1 heteropolymerization: crystal structure of a native vertebrate egg coat filament fragment

Biological Source:

Source Organism:

Oryzias latipes

PDB Version:

Deposition Date:

2023-12-25

Release Date:

2024-03-13

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

4.20 Å

R-Value Free:

0.36

R-Value Work:

0.32

R-Value Observed:

0.33

Space Group:

P 31 2 1

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Zona pellucida sperm-binding protein 3
Chain IDs:A
Chain Length:320
Number of Molecules:1
Biological Source:Oryzias latipes

UniProt ID:Q91184 Pfam ID:PF00100

Protein Blast

Polymer Type:polypeptide(L)
Description:Choriogenin H
Chain IDs:B
Chain Length:170
Number of Molecules:1
Biological Source:Oryzias latipes

UniProt ID:A0A3B3H5X1 Pfam ID:PF00100

Protein Blast

Polymer Type:polypeptide(L)
Description:Choriogenin H
Chain IDs:C
Chain Length:167
Number of Molecules:1
Biological Source:Oryzias latipes

UniProt ID:P79817 Pfam ID:PF00100

Ligand Molecules

Primary Citation

ZP2 cleavage blocks polyspermy by modulating the architecture of the egg coat.

Nishio, S, Emori, C, Wiseman, B, Fahrenkamp, D, Dioguardi, E, Zamora-Caballero, S, Bokhove, M, Han, L, Stsiapanava, A, Algarra, B, Lu, Y, Kodani, M, Bainbridge, R.E, Komondor, K.M, Carlson, A.E, Landreh, M, de Sanctis, D, Yasumasu, S, Ikawa, M, Jovine, L, Greve, J.M, Wassarman, P.M, Yasumasu, S, Iuchi, I, Yamagami, K, Yasumasu, S, Iuchi, I, Yamagami, K, Yasumasu, S, Yamada, K, Akasaka, K, Mitsunaga, K, Iuchi, I, Shimada, H, Yamagami, K, Murata, K, Sugiyama, H, Yasumasu, S, Iuchi, I, Yasumasu, I, Yamagami, K, Murata, K, Sasaki, T, Yasumasu, S, Iuchi, I, Enami, J, Yasumasu, I, Yamagami, K, Sugiyama, H, Yasumasu, S, Murata, K, Iuchi, I, Yamagami, K, Sugiyama, H, Murata, K, Iuchi, I, Nomura, K, Yamagami, K, Monne, M, Han, L, Schwend, T, Burendahl, S, Jovine, L, Yasumasu, S, Kawaguchi, M, Ouchi, S, Sano, K, Murata, K, Sugiyama, H, Akema, T, Iuchi, I, Han, L, Monne, M, Okumura, H, Schwend, T, Cherry, A.L, Flot, D, Matsuda, T, Jovine, L, Bokhove, M, Jovine, L, Stsiapanava, A, Xu, C, Brunati, M, Zamora-Caballero, S, Schaeffer, C, Bokhove, M, Han, L, Hebert, H, Carroni, M, Yasumasu, S, Rampoldi, L, Wu, B, Jovine, L, Murata, K, Kinoshita, M.Show

Cell 187 1440 1459.e24 (2024)

PMID: 38490181 DOI: 10.1016/j.cell.2024.02.013

Abstact

Following the fertilization of an egg by a single sperm, the egg coat or zona pellucida (ZP) hardens and polyspermy is irreversibly blocked. These events are associated with the cleavage of the N-terminal region (NTR) of glycoprotein ZP2, a major subunit of ZP filaments. ZP2 processing is thought to inactivate sperm binding to the ZP, but its molecular consequences and connection with ZP hardening are unknown. Biochemical and structural studies show that cleavage of ZP2 triggers its oligomerization. Moreover, the structure of a native vertebrate egg coat filament, combined with AlphaFold predictions of human ZP polymers, reveals that two protofilaments consisting of type I (ZP3) and type II (ZP1/ZP2/ZP4) components interlock into a left-handed double helix from which the NTRs of type II subunits protrude. Together, these data suggest that oligomerization of cleaved ZP2 NTRs extensively cross-links ZP filaments, rigidifying the egg coat and making it physically impenetrable to sperm.

Legend

Protein

Chemical

Disease

Primary Citation of related structures