3B9K

Crystal structure of CD8alpha-beta in complex with YTS 156.7 FAB

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
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)
A [auth L]	d3b9kl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
A [auth L]	d3b9kl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
E [auth C]	d3b9kc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
E [auth C]	d3b9kc2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
B [auth H]	d3b9kh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
F [auth D]	d3b9kd_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
C [auth A]	d3b9ka_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	CD8	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G [auth E]	d3b9ke_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	CD8	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth B]	d3b9kb_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	CD8	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H [auth F]	d3b9kf_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	CD8	mouse (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)
C [auth A]	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054489	3000071	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054489	3000071	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054491	3000071	SCOP2B (2022-06-29)
H [auth F]	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054491	3000071	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)
A [auth L]	C1-set_4	e3b9kL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
A [auth L]	V-set	e3b9kL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
E [auth C]	C1-set_4	e3b9kC2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
E [auth C]	V-set	e3b9kC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B [auth H]	V-set_8	e3b9kH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
B [auth H]	C1-set_1	e3b9kH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
F [auth D]	V-set_8	e3b9kD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
F [auth D]	C1-set_1	e3b9kD2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
C [auth A]	I-set_12	e3b9kA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_12	ECOD (1.6)
G [auth E]	I-set_12	e3b9kE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_12	ECOD (1.6)
D [auth B]	V-set_5	e3b9kB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_5	ECOD (1.6)
H [auth F]	V-set_5	e3b9kF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_5	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
E [auth C]	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)
F [auth D]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth A]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth E]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
H [auth F]	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
A [auth L], E [auth C]	Fab YTS 156.7.7	L-KAPPA	Rattus norvegicus (Norway rat)	IGKV19S201, IGKJ2-301, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-2B_KAPPA	IMGT (202415-0)
B [auth H], F [auth D]	Fab YTS 156.7.7	VH-CH1	Rattus norvegicus (Norway rat)	IGHV2-101, IGHJ201, IGHG2B*01	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-2B_KAPPA	IMGT (202415-0)
C [auth A], G [auth E]	CD8A_CD8B heterodimer	1V-LIKE	Mus musculus (house mouse)	CD8A*02	V-LIKE-DOMAIN V-LIKE	RPI	1V-LIKE_1V-LIKE	IMGT (202415-0)
D [auth B], H [auth F]	CD8A_CD8B heterodimer	1V-LIKE	Mus musculus (house mouse)	CD8B*01	V-LIKE-DOMAIN V-LIKE	RPI	1V-LIKE_1V-LIKE	IMGT (202415-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L], E [auth C]	Light Chain	IGKV19	Kappa	t-cell surface glycoprotein cd8 beta chain	SAbDab (2024-04-19)
B [auth H], F [auth D]	Heavy Chain	IGHV2	-	t-cell surface glycoprotein cd8 beta chain	SAbDab (2024-04-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], G [auth E]	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain
D [auth B], H [auth F]	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L], E [auth C]	Fab Light Chain	-	-	-
B [auth H], F [auth D]	Fab Heavy chain	-	-	-
C [auth A], G [auth E]	T-cell surface glycoprotein CD8 alpha chain	protein binding binding kinase binding enzyme binding protein kinase binding protein-containing complex binding MHC protein complex binding MHC class I protein complex binding identical protein binding	multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling positive regulation of calcium-mediated signaling signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus calcium-mediated signaling regulation of cell communication positive regulation of signaling adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity T cell mediated immunity immune response leukocyte mediated immunity adaptive immune response immune effector process cell surface receptor signaling pathway immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process immune response-activating cell surface receptor signaling pathway T cell receptor signaling pathway regulation of immune response antigen receptor-mediated signaling pathway activation of immune response developmental process cytotoxic T cell differentiation cellular developmental process hemopoiesis cell development mononuclear cell differentiation lymphocyte differentiation cell differentiation anatomical structure development T cell differentiation leukocyte differentiation biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to virus defense response to other organism response to stress response to external biotic stimulus response to virus	protein-containing complex receptor complex cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane membrane microdomain membrane raft plasma membrane raft plasma membrane region
D [auth B], H [auth F]	T-cell surface glycoprotein CD8 beta chain	molecular transducer activity coreceptor activity signaling receptor activity protein binding binding MHC class I protein binding signaling receptor binding MHC protein binding	multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus signaling positive regulation of biological process cell communication multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus signaling positive regulation of biological process cell communication positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process regulation of biological process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway immune response biological regulation T cell receptor signaling pathway regulation of response to stimulus regulation of immune response antigen receptor-mediated signaling pathway activation of immune response adaptive immune response	protein-containing complex receptor complex cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], G [auth E]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
C [auth A], G [auth E]	IPR003599	Immunoglobulin subtype	Domain
C [auth A], G [auth E]	IPR015468	CD8 alpha subunit	Family
C [auth A], G [auth E]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth A], G [auth E]	IPR013106	Immunoglobulin V-set domain	Domain
C [auth A], G [auth E]	IPR007110	Immunoglobulin-like domain	Domain
D [auth B], H [auth F]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
D [auth B], H [auth F]	IPR003599	Immunoglobulin subtype	Domain
D [auth B], H [auth F]	IPR042414	T-cell surface glycoprotein CD8 beta chain	Family
D [auth B], H [auth F]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
D [auth B], H [auth F]	IPR013106	Immunoglobulin V-set domain	Domain
D [auth B], H [auth F]	IPR007110	Immunoglobulin-like domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.