5VYF | pdb_00005vyf

Structure of single chain Fel d 1 bound to a neutralizing antibody

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Thera-SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth C]	d5vyfc1	All alpha proteins	Uteroglobin-like	Uteroglobin-like	automated matches	automated matches	Cat (Felis catus ) [TaxId: 9685 ], Cat (Felis catus ) [TaxId: 9685 ],	SCOPe (2.08)
C [auth F]	d5vyff1	All alpha proteins	Uteroglobin-like	Uteroglobin-like	automated matches	automated matches	Cat (Felis catus ) [TaxId: 9685 ], Cat (Felis catus ) [TaxId: 9685 ],	SCOPe (2.08)
E [auth B]	d5vyfb_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B [auth H]	d5vyfh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth A]	d5vyfa2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth A]	d5vyfa1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth L]	d5vyfl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth L]	d5vyfl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth C]	SCOP2B Superfamily	Uteroglobin-like	8040121	3000959	SCOP2B (2022-06-29)
C [auth F]	SCOP2B Superfamily	Uteroglobin-like	8040121	3000959	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth C]	UDPGP	e5vyfC1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UDPGP	ECOD (v294.1)
C [auth F]	V-set	e5vyfF1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: V-set	ECOD (v294.1)
E [auth B]	UDPGP	e5vyfB1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UDPGP	ECOD (v294.1)
B [auth H]	V-set	e5vyfH1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: V-set	ECOD (v294.1)
D [auth A]	UDPGP	e5vyfA1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UDPGP	ECOD (v294.1)
A [auth L]	V-set	e5vyfL1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: V-set	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth C]	1.20.920.50	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (4.3.0)
C [auth F]	1.20.920.50	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (4.3.0)
E [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth A]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

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
B [auth H], E [auth B]	Antibody Fab Fragment, neutralizing antibody	VH-CH1	Homo sapiens (human)	IGHV3-2304, IGHJ401, IGHJ402, IGHJ403, IGHG401, IGHG404	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-4_KAPPA	IMGT (202611-0)
A [auth L], D [auth A]	Antibody Fab Fragment, neutralizing antibody	L-KAPPA	Homo sapiens (human)	IGKV1-503, IGKJ401, IGKJ402, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-4_KAPPA	IMGT (202611-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H], E [auth B]	Heavy Chain	IGHV3	-	chimera of major allergen i polypeptide chain 2,majorallergen i polypeptide chain 1	SAbDab (2026-03-27)
A [auth L], D [auth A]	Light Chain	IGKV1	Kappa	chimera of major allergen i polypeptide chain 2,majorallergen i polypeptide chain 1	SAbDab (2026-03-27)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
B [auth H], E [auth B]	Mevonlerbart	Fel d 1	Therapeutic SAbDab (2026-03-27)
A [auth L], D [auth A]	Mevonlerbart	Fel d 1	Therapeutic SAbDab (2026-03-27)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth F], F [auth C]	PF09252	Allergen Fel d I-B chain (Feld-I_B)	Allergen Fel d I-B chain	Members of this family of cat allergens adopt a helical structure consisting of eight alpha helices, in a Uteroglobin-like fold. They are one of the most important causes of allergic asthma worldwide [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth F], F [auth C]	Chimera of Major allergen I polypeptide chain 2,Major allergen I polypeptide chain 1	binding steroid binding lipid binding	-	cellular anatomical structure extracellular region extracellular space
B [auth H], E [auth B]	Antibody Fab heavy chain	-	-	-
A [auth L], D [auth A]	Antibody light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth F], F [auth C]	IPR006178	Major allergen I polypeptide chain 1	Family
C [auth F], F [auth C]	IPR016126	Secretoglobin	Family
C [auth F], F [auth C]	IPR035960	Secretoglobin superfamily	Homologous Superfamily
C [auth F], F [auth C]	IPR053723	Secretoglobin Domain-Containing	Homologous Superfamily
C [auth F], F [auth C]	IPR016126	Secretoglobin	Family
C [auth F], F [auth C]	IPR035960	Secretoglobin superfamily	Homologous Superfamily
C [auth F], F [auth C]	IPR015332	Major allergen I polypeptide chain 2-like	Family
C [auth F], F [auth C]	IPR053723	Secretoglobin Domain-Containing	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
C [auth F], F [auth C]	OPM	Monotopic/peripheral	All alpha monotopic/peripheral	Uteroglobin-like	Uteroglobin

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.