6TYB | pdb_00006tyb

Isolation and Structure of an Antibody that Fully Neutralizes Isolate SIVmac239 Reveals Functional Similarity of SIV and HIV Glycan Shields

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth L]	d6tybl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Rhesus (Macaca mulatta ) [TaxId: 9544 ],	SCOPe (2.08)
D [auth L]	d6tybl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Rhesus (Macaca mulatta ) [TaxId: 9544 ],	SCOPe (2.08)
C [auth H]	d6tybh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Rhesus (Macaca mulatta ) [TaxId: 9544 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth L]		e6tybL1	A: Nat/Ivy	X: Acyl-CoA N-acyltransferases (Nat)	H: Acyl-CoA N-acyltransferases (Nat)	T: SRP54_N	F:	ECOD (20:10:01)
C [auth H]		e6tybH1	A: Nat/Ivy	X: Acyl-CoA N-acyltransferases (Nat)	H: Acyl-CoA N-acyltransferases (Nat)	T: SRP54_N	F:	ECOD (20:10:01)
B [auth C]		e6tybC1	A: Nat/Ivy	X: Acyl-CoA N-acyltransferases (Nat)	H: Acyl-CoA N-acyltransferases (Nat)	T: SRP54_N	F:	ECOD (20:10:01)
A [auth G]		e6tybG1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: dUTPase	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B [auth C]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A [auth G]	2.170.40.20	Mainly Beta	Beta Complex	HIV Envelope Protein Gp120	Chain G	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
D [auth L]	Fab ITS90.03, broadly neutralizing	L-KAPPA	Chimeric (chimeric)	IGKV1-2001, IGKJ101, IGKJ201, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)
C [auth H]	Fab ITS90.03, broadly neutralizing	VH-CH1	Chimeric (chimeric)	IGHJ401, IGHG103, IGHG108, IGHG106	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
D [auth L]	Light Chain	IGKV1	Kappa	envelope glycoprotein gp160	SAbDab (2026-03-13)
C [auth H]	Heavy Chain	IGHV5	-	envelope glycoprotein gp160	SAbDab (2026-03-13)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C]	PF05790	Immunoglobulin C2-set domain (C2-set)	Immunoglobulin C2-set domain		Domain
B [auth C]	PF00047	Immunoglobulin domain (ig)	Immunoglobulin domain	Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-prote ...	Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-protein and protein-ligand interactions.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth L]	NEUTRALIZING ANTIBODY ITS90.03 FAB LIGHT CHAIN	-	-	-
C [auth H]	NEUTRALIZING ANTIBODY ITS90.03 FAB HEAVY CHAIN	-	-	-
B [auth C]	T-cell surface glycoprotein CD4	molecular transducer activity coreceptor activity signaling receptor activity protein-containing complex binding binding MHC protein complex binding MHC class II protein complex binding	regulation of biological process immune system process biological regulation positive regulation of biological process regulation of immune system process positive regulation of immune system process response to stimulus immune response adaptive immune response multicellular organismal process regulation of cellular process regulation of leukocyte activation cell activation regulation of cell activation regulation of biological process immune system process biological regulation positive regulation of biological process regulation of immune system process positive regulation of immune system process response to stimulus immune response adaptive immune response multicellular organismal process regulation of cellular process regulation of leukocyte activation cell activation regulation of cell activation regulation of T cell activation lymphocyte activation leukocyte activation T cell activation cellular process regulation of multicellular organismal process regulation of lymphocyte activation cell adhesion developmental process cellular developmental process hemopoiesis cell development mononuclear cell differentiation lymphocyte differentiation cell differentiation anatomical structure development T cell differentiation T cell selection leukocyte differentiation positive regulation of multicellular organismal process	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane
A [auth G]	Envelope glycoprotein gp160	structural molecule activity	viral process membrane fusion involved in viral entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host	virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle virion component viral membrane viral envelope host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part virion membrane host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm part host intracellular organelle host cell endosome membrane host cell cytoplasm host cell endosome host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR008424	Immunoglobulin C2-set	Domain
B [auth C]	IPR021963	T cell CD4 receptor C-terminal region	Domain
B [auth C]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B [auth C]	IPR013151	Immunoglobulin-like beta-sandwich domain	Domain
B [auth C]	IPR015274	CD4, extracellular	Domain
B [auth C]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B [auth C]	IPR013106	Immunoglobulin V-set domain	Domain
B [auth C]	IPR000973	T-cell surface antigen CD4	Family
B [auth C]	IPR003599	Immunoglobulin domain subtype	Domain
B [auth C]	IPR007110	Immunoglobulin-like domain	Domain
A [auth G]	IPR000777	Human immunodeficiency virus 1, envelope glycoprotein Gp120	Domain
A [auth G]	IPR036377	Gp120 core superfamily	Homologous Superfamily
A [auth G]	IPR000328	Retroviral envelope protein GP41-like	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.