1HYR | pdb_00001hyr

CRYSTAL STRUCTURE OF HUMAN MICA IN COMPLEX WITH NATURAL KILLER CELL RECEPTOR NKG2D

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth B]	d1hyrb_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	C-type lectin domain	NK cell-activating receptor nkg2d	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth A]	d1hyra_	Alpha and beta proteins (a+b)	C-type lectin-like	C-type lectin-like	C-type lectin domain	NK cell-activating receptor nkg2d	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1hyrc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	Class I MHC homolog, alpha-3 domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1hyrc2	Alpha and beta proteins (a+b)	MHC antigen-recognition domain	MHC antigen-recognition domain	MHC antigen-recognition domain	Class I MHC homolog	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2B Superfamily	C-type lectin-like	8032823	3001261	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	C-type lectin-like	8032823	3001261	SCOP2B (2022-06-29)
C	SCOP2 Family	MHC antigen-recognition domain	8021036	4001031	SCOP2 (2022-06-29)
C	SCOP2 Family	C1 set domains-like	8054640	4000202	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	MHC antigen-recognition domain	8033416	3000521	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Immunoglobulin (Ig) domain-like	8054641	3000071	SCOP2 (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 B]		e1hyrB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)
B [auth A]		e1hyrA1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Peptidase_C1	F:	ECOD (20:10:01)
C		e1hyrC1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: C1-set	F:	ECOD (20:10:01)
C		e1hyrC2	A: MHC antigen-recognition domain	X: MHC antigen-recognition domain	H: MHC antigen-recognition domain	T: MHC_I	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
B [auth A]	3.10.100.10	Alpha Beta	Roll	Mannose-Binding Protein A	Chain A	CATH (4.3.0)
C	3.30.500.10	Alpha Beta	2-Layer Sandwich	Murine Class I Major Histocompatibility Complex, H2-DB	Chain A, domain 1	CATH (4.3.0)
C	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
C	MICA	I-ALPHA-LIKE	Homo sapiens (human)	MICA01, MICA65	G-DOMAIN G-ALPHA1-LIKE, G-DOMAIN G-ALPHA2-LIKE, C-LIKE-DOMAIN C-LIKE	RPI	MH1LIKE-ALPHA-LIKE[3D]	IMGT (202609-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth A]	PF00059	Lectin C-type domain (Lectin_C)	Lectin C-type domain	This family includes both long and short form C-type	Domain
C	PF00129	Class I Histocompatibility antigen, domains alpha 1 and 2 (MHC_I)	Class I Histocompatibility antigen, domains alpha 1 and 2		Domain
C	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth A]	NKG2-D TYPE II INTEGRAL MEMBRANE PROTEIN	MHC class Ib receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity binding carbohydrate binding protein binding MHC class I protein binding signaling receptor binding MHC protein binding identical protein binding	regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus regulation of cellular process response to stimulus response to biotic stimulus positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity leukocyte mediated immunity regulation of immune system process natural killer cell mediated immunity positive regulation of immune system process regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus regulation of cellular process response to stimulus response to biotic stimulus positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity leukocyte mediated immunity regulation of immune system process natural killer cell mediated immunity positive regulation of immune system process regulation of biological process regulation of natural killer cell mediated immunity immune response response to other organism regulation of innate immune response response to external stimulus leukocyte mediated cytotoxicity immune effector process regulation of leukocyte mediated immunity regulation of response to stimulus defense response to other organism positive regulation of defense response natural killer cell mediated cytotoxicity regulation of immune response positive regulation of natural killer cell mediated cytotoxicity regulation of cell killing positive regulation of cell killing regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity biological process involved in interspecies interaction between organisms regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process positive regulation of response to stimulus positive regulation of response to external stimulus regulation of response to stress response to stress innate immune response positive regulation of immune effector process response to external biotic stimulus positive regulation of cellular process positive regulation of innate immune response defense response regulation of leukocyte mediated cytotoxicity biological regulation defense response to symbiont regulation of lymphocyte mediated immunity immune system process cellular process cell killing regulation of biosynthetic process regulation of nitric oxide biosynthetic process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process metabolic process regulation of nitric oxide metabolic process positive regulation of nitric oxide biosynthetic process regulation of metabolic process developmental process cellular developmental process cell differentiation cellular response to stimulus negative regulation of mononuclear cell migration negative regulation of locomotion regulation of cell motility negative regulation of biological process negative regulation of chemotaxis regulation of lymphocyte chemotaxis natural killer cell chemotaxis taxis cell migration negative regulation of lymphocyte migration regulation of mononuclear cell migration negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration lymphocyte migration leukocyte migration negative regulation of leukocyte migration response to chemical regulation of locomotion negative regulation of response to external stimulus negative regulation of cell motility negative regulation of leukocyte chemotaxis regulation of natural killer cell chemotaxis lymphocyte chemotaxis regulation of lymphocyte migration regulation of cell migration negative regulation of cellular process negative regulation of lymphocyte chemotaxis cell motility locomotion cell chemotaxis negative regulation of response to stimulus regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process negative regulation of natural killer cell chemotaxis mononuclear cell migration leukocyte chemotaxis adaptive immune response response to lipid cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to biotic stimulus response to bacterium cellular response to lipid response to molecule of bacterial origin immune response-regulating cell surface receptor signaling pathway cell communication immune response-activating signaling pathway signal transduction innate immune response-activating signaling pathway immune response-activating cell surface receptor signaling pathway response to lectin cellular response to lectin activation of innate immune response activation of immune response signaling innate immune response activating cell surface receptor signaling pathway immune response-regulating signaling pathway cell surface receptor signaling pathway stimulatory C-type lectin receptor signaling pathway negative regulation of hydrolase activity negative regulation of GTPase activity regulation of catalytic activity negative regulation of molecular function negative regulation of catalytic activity regulation of GTPase activity regulation of molecular function regulation of hydrolase activity multicellular organismal process cell activation natural killer cell activation lymphocyte activation leukocyte activation regulation of leukocyte activation regulation of cell activation positive regulation of leukocyte cell-cell adhesion leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation cell adhesion cell-cell adhesion T cell activation positive regulation of leukocyte activation regulation of multicellular organismal process regulation of cell-cell adhesion positive regulation of T cell activation positive regulation of cell adhesion regulation of cell adhesion regulation of T cell activation lymphocyte costimulation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process T cell costimulation regulation of lymphocyte activation regulation of type II interferon production type II interferon production positive regulation of macromolecule biosynthetic process cytokine production regulation of cytokine production positive regulation of macromolecule metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of type II interferon production regulation of gene expression positive regulation of gene expression regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of cytokine production defense response to Gram-positive bacterium defense response to bacterium	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane
C	MHC CLASS I CHAIN-RELATED PROTEIN A	molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity natural killer cell lectin-like receptor binding protein binding binding signaling receptor binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process multicellular organismal process regulation of cellular process regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation negative regulation of natural killer cell activation cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process multicellular organismal process regulation of cellular process regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation negative regulation of natural killer cell activation leukocyte activation negative regulation of cellular process regulation of immune system process regulation of multicellular organismal process regulation of natural killer cell activation regulation of biological process cell activation biological regulation natural killer cell activation negative regulation of cell activation negative regulation of immune system process immune system process negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation immune response gamma-delta T cell activation T cell activation adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains T cell mediated cytotoxicity lymphocyte mediated immunity T cell mediated immunity leukocyte mediated cytotoxicity adaptive immune response immune effector process leukocyte mediated immunity cell killing defense response to bacterium biological process involved in interspecies interaction between organisms response to other organism defense response response to bacterium response to external stimulus response to external biotic stimulus response to biotic stimulus regulation of immune effector process negative regulation of lymphocyte mediated immunity negative regulation of natural killer cell mediated immunity natural killer cell mediated immunity regulation of natural killer cell mediated immunity regulation of innate immune response negative regulation of immune response negative regulation of immune effector process regulation of leukocyte mediated immunity regulation of response to stimulus defense response to other organism negative regulation of response to external stimulus negative regulation of defense response natural killer cell mediated cytotoxicity regulation of immune response regulation of cell killing negative regulation of natural killer cell mediated cytotoxicity regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity regulation of response to external stimulus negative regulation of response to biotic stimulus regulation of response to stress negative regulation of leukocyte mediated cytotoxicity innate immune response negative regulation of cell killing negative regulation of response to stimulus regulation of leukocyte mediated cytotoxicity defense response to symbiont regulation of lymphocyte mediated immunity negative regulation of leukocyte mediated immunity negative regulation of innate immune response disruption of cell in another organism disruption of anatomical structure in another organism killing of cells of another organism response to tumor cell immune response to tumor cell defense response to virus response to virus response to heat response to abiotic stimulus response to temperature stimulus	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth A]	IPR016187	C-type lectin fold	Homologous Superfamily
A [auth B], B [auth A]	IPR001304	C-type lectin-like	Domain
A [auth B], B [auth A]	IPR016186	C-type lectin-like/link domain superfamily	Homologous Superfamily
A [auth B], B [auth A]	IPR033992	Natural killer cell receptor-like, C-type lectin-like domain	Domain
A [auth B], B [auth A]	IPR042169	NKG2-D type II integral membrane protein	Family
C	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
C	IPR050208	Antigen-presenting and immune regulatory MHC class I-related	Family
C	IPR003597	Immunoglobulin C1-set	Domain
C	IPR011161	MHC class I-like antigen recognition-like	Domain
C	IPR011162	MHC classes I/II-like antigen recognition protein	Homologous Superfamily
C	IPR037055	MHC class I-like antigen recognition-like superfamily	Homologous Superfamily
C	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C	IPR007110	Immunoglobulin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth B], B [auth A]	Pharos: P26718	melanoma alopecia areata cutaneous melanoma Behcet disease hematologic disease cancer
C	Pharos: Q29983	coronary aneurysm oral submucous fibrosis idiopathic pulmonary fibrosis acute interstitial pneumonia idiopathic interstitial pneumonia Liver carcinoma medulloblastoma ovarian cancer subependymal giant cell astrocytoma alopecia areata lung cancer psoriasis 1, susceptibility to ankylosing spondylitis hepatocellular carcinoma large cell medulloblastoma coronary aneurysm oral submucous fibrosis idiopathic pulmonary fibrosis acute interstitial pneumonia idiopathic interstitial pneumonia Liver carcinoma medulloblastoma ovarian cancer subependymal giant cell astrocytoma alopecia areata lung cancer psoriasis 1, susceptibility to ankylosing spondylitis hepatocellular carcinoma large cell medulloblastoma lung carcinoma osteosarcoma psoriatic arthritis

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.