9H4R | pdb_00009h4r

Structure of fertilization-blocking monoclonal antibody IE-3 VHVL bound to the ZP-N1 domain of mouse ZP2 (crystal form I)

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth H]	V-set	e9h4rH01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: V-set	ECOD (v294.1)
C [auth L]	V-set	e9h4rL01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: V-set	ECOD (v294.1)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H], E [auth X]	Heavy Chain	IGHV1	-	zona pellucida sperm-binding protein 2	SAbDab (2026-03-27)
C [auth L], F [auth Y]	Light Chain	IGKV8	Kappa	zona pellucida sperm-binding protein 2	SAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth B]	PF23738	Zona pellucida sperm-binding protein 2, Ig-like domain (Ig_ZP2_N)	Zona pellucida sperm-binding protein 2, Ig-like domain	This domain is found at the N-terminal end of Zona pellucida sperm-binding protein 2 (ZP2) from mouse and similar proteins from vertebrates. ZP2 is a component of the zona pellucida, an extracellular matrix surrounding oocytes which mediates sperm bi ...	This domain is found at the N-terminal end of Zona pellucida sperm-binding protein 2 (ZP2) from mouse and similar proteins from vertebrates. ZP2 is a component of the zona pellucida, an extracellular matrix surrounding oocytes which mediates sperm binding, induction of the acrosome reaction and prevents post-fertilisation polyspermy. This protein is thought to act as a secondary sperm receptor. This domain adopts an immunoglobulin-like (Ig-like) fold [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth H], E [auth X]	Heavy chain variable (VH) domain of anti-ZP2 monoclonal antibody IE-3	-	-	-
C [auth L], F [auth Y]	Light chain variable (VL) domain of anti-ZP2 monoclonal antibody IE-3	-	-	-
A, D [auth B]	Zona pellucida sperm-binding protein 2	protein binding binding acrosin binding enzyme binding identical protein binding structural constituent of egg coat structural molecule activity extracellular matrix structural constituent	multicellular organismal process regulation of biological process sexual reproduction regulation of reproductive process reproductive process fertilization egg activation cell activation biological regulation negative regulation of biological process regulation of fertilization negative regulation of fertilization negative regulation of reproductive process prevention of polyspermy multicellular organismal process regulation of biological process sexual reproduction regulation of reproductive process reproductive process fertilization egg activation cell activation biological regulation negative regulation of biological process regulation of fertilization negative regulation of fertilization negative regulation of reproductive process prevention of polyspermy cellular process single fertilization sperm-egg recognition cell-cell recognition binding of sperm to zona pellucida cell recognition	extracellular matrix cellular anatomical structure external encapsulating structure extracellular region egg coat specialized extracellular matrix cell periphery plasma membrane membrane membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle intracellular membrane-bounded organelle extracellular matrix cellular anatomical structure external encapsulating structure extracellular region egg coat specialized extracellular matrix cell periphery plasma membrane membrane membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle late endosome cytoplasm multivesicular body vesicle endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth B]	IPR057638	Zona pellucida sperm-binding protein 2, second Ig-like domain	Domain
A, D [auth B]	IPR017977	Zona pellucida domain, conserved site	Conserved Site
A, D [auth B]	IPR057637	Zona pellucida sperm-binding protein 2, first Ig-like domain	Domain
A, D [auth B]	IPR042235	Zona pellucida, ZP-C domain	Homologous Superfamily
A, D [auth B]	IPR051148	Zona Pellucida Domain Glycoprotein	Family
A, D [auth B]	IPR055356	ZP-N domain	Domain
A, D [auth B]	IPR055355	ZP-C domain	Domain
A, D [auth B]	IPR048290	Zona pellucida domain, chordate-type	Domain
A, D [auth B]	IPR001507	Zona pellucida domain	Domain
A, D [auth B]	IPR057636	Zona pellucida sperm-binding protein 2, third Ig-like domain	Domain

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.