1Q8M | pdb_00001q8m

Crystal structure of the human myeloid cell activating receptor TREM-1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
C	d1q8mc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	TREM-1 (triggering receptor expressed on myeloid cells 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1q8mc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d1q8mc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1q8md1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	TREM-1 (triggering receptor expressed on myeloid cells 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1q8md2	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d1q8md3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1q8mb1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	TREM-1 (triggering receptor expressed on myeloid cells 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1q8mb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1q8mb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1q8ma1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	TREM-1 (triggering receptor expressed on myeloid cells 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1q8ma2	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1q8ma3	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
C	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054483	3000071	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054483	3000071	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054483	3000071	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054483	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)
C	Copper-bind	e1q8mC1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (develop294)
D	Copper-bind	e1q8mD1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (develop294)
B	Copper-bind	e1q8mB1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (develop294)
A	Copper-bind	e1q8mA1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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, B, C, D	triggering receptor expressed on myeloid cells 1	molecular transducer activity signaling receptor activity molecular sequestering activity receptor decoy activity scaffold protein binding protein binding binding transmembrane signaling receptor activity	neutrophil-mediated killing of symbiont cell biological process involved in interspecies interaction between organisms response to stimulus disruption of cell in another organism defense response to Gram-negative bacterium response to biotic stimulus myeloid leukocyte mediated immunity defense response to bacterium neutrophil mediated immunity response to bacterium response to stress leukocyte mediated immunity response to external biotic stimulus killing of cells of another organism neutrophil-mediated killing of symbiont cell biological process involved in interspecies interaction between organisms response to stimulus disruption of cell in another organism defense response to Gram-negative bacterium response to biotic stimulus myeloid leukocyte mediated immunity defense response to bacterium neutrophil mediated immunity response to bacterium response to stress leukocyte mediated immunity response to external biotic stimulus killing of cells of another organism neutrophil-mediated killing of bacterium neutrophil mediated cytotoxicity response to other organism defense response response to external stimulus leukocyte mediated cytotoxicity immune effector process neutrophil-mediated killing of gram-negative bacterium immune system process cellular process disruption of anatomical structure in another organism cell killing immune response adaptive immune response humoral immune response cell chemotaxis cellular response to stimulus chemotaxis neutrophil chemotaxis neutrophil migration granulocyte migration leukocyte migration cellular response to chemical stimulus taxis granulocyte chemotaxis response to chemical myeloid leukocyte migration cell migration cell motility leukocyte chemotaxis locomotion defense response to symbiont defense response to other organism innate immune response regulation of biological process regulation of cellular process signaling biological regulation signal transduction intracellular signal transduction cell communication	cellular anatomical structure extracellular region cell surface cell periphery plasma membrane membrane extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D	IPR013106	Immunoglobulin V-set domain	Domain
A, B, C, D	IPR003599	Immunoglobulin domain subtype	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9NP99	liver disease tuberculosis atypical teratoid rhabdoid tumor interstitial cystitis Liver Dysfunction lung carcinoma pilocytic astrocytoma sarcoidosis ulcerative colitis cutaneous lupus erythematosus invasive ductal breast carcinoma lung adenocarcinoma malignant ependymoma malignant pancreatic neoplasm pituitary cancer liver disease tuberculosis atypical teratoid rhabdoid tumor interstitial cystitis Liver Dysfunction lung carcinoma pilocytic astrocytoma sarcoidosis ulcerative colitis cutaneous lupus erythematosus invasive ductal breast carcinoma lung adenocarcinoma malignant ependymoma malignant pancreatic neoplasm pituitary cancer schizophrenia glioblastoma lung cancer malignant glioma non-small cell lung carcinoma psoriasis

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.