7Y1B | pdb_00007y1b

3.2 angstrom cryo-EM structure of extracellular region of mouse Basigin-2 in complex with the Fab fragment of antibody 6E7F1

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)
A	Peptidase_S9, Peptidase_S15	e7y1bA1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Peptidase_S9, Peptidase_S15	ECOD (develop294)
B [auth H]	Peptidase_S9, Peptidase_S15	e7y1bH1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Peptidase_S9, Peptidase_S15	ECOD (develop294)
C [auth L]	Peptidase_S9, Peptidase_S15	e7y1bL1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Peptidase_S9, Peptidase_S15	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV1	-	isoform 2 of basigin	SAbDab (2026-03-20)
C [auth L]	Light Chain	IGKV5	Kappa	isoform 2 of basigin	SAbDab (2026-03-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13927	Immunoglobulin domain (Ig_3)	Immunoglobulin domain	This family contains immunoglobulin-like domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Isoform 2 of Basigin	protein binding binding virus receptor activity exogenous protein binding molecular transducer activity signaling receptor activity D-mannose binding monosaccharide binding carbohydrate binding small molecule binding cell adhesion molecule binding cell adhesion mediator activity cell-cell adhesion mediator activity	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation response to mercury ion response to stimulus response to metal ion response to chemical response to hormone response to endogenous stimulus developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation response to mercury ion response to stimulus response to metal ion response to chemical response to hormone response to endogenous stimulus response to peptide hormone response to oxygen-containing compound response to nitrogen compound positive regulation of locomotion regulation of biological process regulation of cell motility regulation of cellular process endothelial cell migration biological regulation positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of endothelial cell migration positive regulation of cell motility regulation of cell migration regulation of endothelial cell migration cell migration cellular process cell motility locomotion positive regulation of cellular process multicellular organismal process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process regulation of cytokine production cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process regulation of vascular endothelial growth factor production regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression vascular endothelial growth factor production biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of vascular endothelial growth factor production regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel development system development odontogenesis of dentin-containing tooth odontogenesis animal organ development animal organ morphogenesis interleukin-6 production positive regulation of interleukin-6 production regulation of interleukin-6 production regulation of localization establishment of protein localization regulation of protein localization transport matrix metallopeptidase secretion positive regulation of matrix metallopeptidase secretion positive regulation of establishment of protein localization positive regulation of secretion by cell protein localization to extracellular region positive regulation of protein transport localization secretion by cell regulation of secretion by cell positive regulation of secretion intracellular protein localization regulation of matrix metallopeptidase secretion secretion regulation of transport establishment of protein localization to extracellular region regulation of establishment of protein localization export from cell regulation of protein transport protein secretion establishment of localization positive regulation of protein secretion regulation of protein secretion regulation of secretion positive regulation of transport protein transport macromolecule localization positive regulation of protein localization cell chemotaxis cellular response to stimulus chemotaxis neutrophil chemotaxis response to external stimulus neutrophil migration granulocyte migration leukocyte migration cellular response to chemical stimulus taxis immune system process granulocyte chemotaxis myeloid leukocyte migration leukocyte chemotaxis cellular developmental process developmental growth cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell growth cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation cellular component organization or biogenesis neuron projection extension plasma membrane bounded cell projection organization developmental cell growth growth nervous system development developmental growth involved in morphogenesis generation of neurons neuron development protein localization to cell periphery cellular localization protein localization to plasma membrane localization within membrane protein localization to membrane epithelium development endothelium development morphogenesis of an endothelium endothelial tube morphogenesis morphogenesis of an epithelium tissue development tissue morphogenesis epithelial tube morphogenesis multi-multicellular organism process female pregnancy embryo implantation multi-organism reproductive process neuron recognition dendrite self-avoidance cell recognition multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis retina homeostasis photoreceptor cell maintenance axonogenesis axon guidance axon development cell morphogenesis involved in neuron differentiation neuron projection guidance placenta development maternal process involved in female pregnancy maternal placenta development decidualization cell adhesion cell-cell adhesion homophilic cell-cell adhesion biological process involved in interspecies interaction between organisms positive regulation of viral life cycle positive regulation of viral process viral life cycle modulation by symbiont of entry into host biological process involved in interaction with host biological process involved in symbiotic interaction regulation of viral entry into host cell regulation of viral life cycle regulation of viral process symbiont entry into host cell viral process symbiont entry into host positive regulation of viral entry into host cell positive regulation by symbiont of entry into host regulation of biological process involved in symbiotic interaction response to organophosphorus response to purine-containing compound response to cAMP sensory organ development eye development retina development in camera-type eye visual system development neural retina development camera-type eye development sensory system development	cellular anatomical structure photoreceptor inner segment cell periphery sarcolemma plasma membrane membrane basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium cellular anatomical structure photoreceptor inner segment cell periphery sarcolemma plasma membrane membrane basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium neuron projection photoreceptor outer segment plasma membrane bounded cell projection cell projection photoreceptor cell cilium organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane endosome intracellular vesicle cytoplasmic vesicle vesicle acrosomal vesicle acrosomal membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane secretory granule secretory vesicle secretory granule membrane axon
B [auth H]	Heavy chain of 6E7F1	-	-	-
C [auth L]	Light chain of 6E7F1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR003598	Immunoglobulin subtype 2	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-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.