4KGQ | pdb_00004kgq

Crystal structure of a human light loop mutant in complex with dcr3

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)
D [auth B]	d4kgqb_	All beta proteins	TNF-like	TNF-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth A]	d4kgqa_	All beta proteins	TNF-like	TNF-like	automated matches	automated matches	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)
D [auth B]	SCOP2B Superfamily	TNF-like	8064725	3000061	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	TNF-like	8064725	3000061	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)
D [auth B]	TNF	e4kgqB1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: TNF	ECOD (1.6)
C [auth A]	TNF	e4kgqA1	A: beta sandwiches	X: jelly-roll	H: TNF-like (From Topology)	T: TNF-like	F: TNF	ECOD (1.6)
B [auth D]	TNFR_c6_2	e4kgqD5	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_2	ECOD (1.6)
B [auth D]	TNFR_c6	e4kgqD6	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6	ECOD (1.6)
A [auth C]	TNFR_c6_2	e4kgqC1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_2	ECOD (1.6)
A [auth C]	TNFR_c6	e4kgqC4	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C [auth A]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B [auth D]	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
A [auth C]	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], D [auth B]	PF00229	TNF(Tumour Necrosis Factor) family (TNF)	TNF(Tumour Necrosis Factor) family		Domain
A [auth C], B [auth D]	PF00020	TNFR/NGFR cysteine-rich region (TNFR_c6)	TNFR/NGFR cysteine-rich region		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], D [auth B]	Tumor necrosis factor ligand superfamily member 14	protein binding binding signaling receptor binding enzyme regulator activity cysteine-type endopeptidase inhibitor activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process molecular function activator activity cytokine activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity cytokine receptor binding tumor necrosis factor receptor superfamily binding protein binding binding signaling receptor binding enzyme regulator activity cysteine-type endopeptidase inhibitor activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process molecular function activator activity cytokine activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity cytokine receptor binding tumor necrosis factor receptor superfamily binding tumor necrosis factor receptor binding identical protein binding	cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB 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 cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction positive regulation of canonical NF-kappaB 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 signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction cellular process positive regulation of signaling developmental process regulation of developmental process cellular developmental process regulation of cell differentiation positive regulation of myoblast differentiation muscle structure development positive regulation of developmental process positive regulation of cell differentiation cell differentiation anatomical structure development regulation of myoblast differentiation myoblast differentiation immune response immune system process apoptotic process cell death programmed cell death multicellular organismal process multicellular organismal-level homeostasis leukocyte homeostasis T cell homeostasis homeostatic process homeostasis of number of cells lymphocyte homeostasis regulation of programmed cell death extrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway positive regulation of programmed cell death cell surface receptor signaling pathway regulation of apoptotic process positive regulation of extrinsic apoptotic signaling pathway positive regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway regulation of apoptotic signaling pathway T cell activation cell activation lymphocyte activation leukocyte activation cell population proliferation leukocyte proliferation mononuclear cell proliferation lymphocyte proliferation T cell proliferation response to mechanical stimulus response to external stimulus response to abiotic stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus positive regulation of cellular component organization regulation of cellular component organization regulation of syncytium formation by plasma membrane fusion cell-cell fusion muscle cell differentiation myotube differentiation cellular component organization cellular component organization or biogenesis syncytium formation positive regulation of myoblast fusion myoblast fusion regulation of myoblast fusion positive regulation of syncytium formation by plasma membrane fusion syncytium formation by plasma membrane fusion anatomical structure morphogenesis anatomical structure formation involved in morphogenesis striated muscle cell differentiation regulation of non-canonical NF-kappaB signal transduction non-canonical NF-kappaB signal transduction positive regulation of non-canonical NF-kappaB signal transduction positive regulation of locomotion regulation of cell motility positive regulation of T cell chemotaxis positive regulation of chemotaxis positive regulation of cell migration regulation of lymphocyte chemotaxis taxis cell migration regulation of immune system process regulation of mononuclear cell migration positive regulation of immune system process chemotaxis regulation of leukocyte chemotaxis positive regulation of lymphocyte migration regulation of leukocyte migration lymphocyte migration positive regulation of leukocyte chemotaxis leukocyte migration regulation of locomotion response to chemical regulation of T cell migration regulation of T cell chemotaxis regulation of response to external stimulus lymphocyte chemotaxis regulation of lymphocyte migration positive regulation of lymphocyte chemotaxis positive regulation of response to external stimulus positive regulation of cell motility regulation of cell migration positive regulation of mononuclear cell migration T cell chemotaxis cell motility locomotion cell chemotaxis positive regulation of T cell migration positive regulation of leukocyte migration regulation of chemotaxis cellular response to chemical stimulus mononuclear cell migration T cell migration leukocyte chemotaxis 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 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	cell periphery cellular anatomical structure plasma membrane membrane intracellular anatomical structure cytoplasm extracellular region extracellular space
A [auth C], B [auth D]	Tumor necrosis factor receptor superfamily member 6B	molecular transducer activity signaling receptor activity	cellular process apoptotic process cell death programmed cell death regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process	cellular anatomical structure extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B]	IPR008983	Tumour necrosis factor-like domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR006052	Tumour necrosis factor domain	Domain
C [auth A], D [auth B]	IPR006053	Tumour necrosis factor	Family
A [auth C], B [auth D]	IPR001368	TNFR/NGFR cysteine-rich region	Domain
A [auth C], B [auth D]	IPR052459	Tumor necrosis factor receptor superfamily decoy receptor	Family
A [auth C], B [auth D]	IPR034023	Tumor necrosis factor receptor 6B, N-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A], D [auth B]	Pharos: O43557	rheumatoid arthritis multiple sclerosis age-related macular degeneration malignant mesothelioma non-small cell lung carcinoma head and neck cancer osteosarcoma tuberculosis interstitial cystitis Multiple Sclerosis, Acute Fulminating ovarian cancer wet macular degeneration
A [auth C], B [auth D]	Pharos: O95407	allergic rhinitis colorectal adenoma cutaneous melanoma inflammatory bowel disease ulcerative colitis atopic eczema colorectal cancer glioblastoma marginal zone lymphoma brain glioma Crohn disease idiopathic pulmonary fibrosis prostate carcinoma

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.