1WMG | pdb_00001wmg

Crystal structure of the UNC5H2 death domain

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d1wmgf_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d1wmge_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d1wmgd_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d1wmgc_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1wmgb_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1wmga_	All alpha proteins	DEATH domain	DEATH domain	DEATH domain, DD	Netrin receptor UNC5B	house 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)
F	SCOP2B Superfamily	DEATH domain	8043640	3000069	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DEATH domain	8043640	3000069	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DEATH domain	8043640	3000069	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DEATH domain	8043640	3000069	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DEATH domain	8043640	3000069	SCOP2B (2022-06-29)
A	SCOP2 Family	DEATH domain, DD	8031262	4000378	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DEATH domain	8043640	3000069	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)
F	Death	e1wmgF1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)
E	Death	e1wmgE1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)
D	Death	e1wmgD1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)
C	Death	e1wmgC1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)
B	Death	e1wmgB1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)
A	Death	e1wmgA1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: Death	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
E	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
D	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
C	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
B	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)
A	1.10.533.10	Mainly Alpha	Orthogonal Bundle	Death Domain, Fas	Death Domain, Fas	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00531	Death domain (Death)	Death domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	netrin receptor Unc5h2	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity netrin receptor activity	cellular response to stimulus negative regulation of extrinsic apoptotic signaling pathway in absence of ligand regulation of cellular process response to stimulus signal transduction in absence of ligand negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction regulation of programmed cell death negative regulation of cell communication extrinsic apoptotic signaling pathway negative regulation of signal transduction in absence of ligand cell communication negative regulation of extrinsic apoptotic signaling pathway cellular response to stimulus negative regulation of extrinsic apoptotic signaling pathway in absence of ligand regulation of cellular process response to stimulus signal transduction in absence of ligand negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction regulation of programmed cell death negative regulation of cell communication extrinsic apoptotic signaling pathway negative regulation of signal transduction in absence of ligand cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process extrinsic apoptotic signaling pathway in absence of ligand signal transduction regulation of signaling regulation of biological process cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process biological regulation cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway in absence of ligand regulation of cell communication cellular process apoptotic process programmed cell death regulation of apoptotic signaling pathway developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel development system development axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation cellular component organization or biogenesis plasma membrane bounded cell projection organization axon guidance nervous system development anterior/posterior axon guidance axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron projection guidance neuron development positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signal transduction positive regulation of biological process intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette positive regulation of cellular process positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signaling neuron apoptotic process negative regulation of neuron apoptotic process regulation of neuron apoptotic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane microdomain membrane raft

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR003598	Immunoglobulin subtype 2	Domain
A, B, C, D, E A, B, C, D, E, F	IPR042156	UNC5B, death domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR033772	UPA domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR003599	Immunoglobulin domain subtype	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013098	Immunoglobulin I-set	Domain
A, B, C, D, E A, B, C, D, E, F	IPR000906	ZU5 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR000884	Thrombospondin type-1 (TSP1) repeat	Repeat
A, B, C, D, E A, B, C, D, E, F	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036383	Thrombospondin type-1 repeat superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037936	Netrin receptor UNC5A-D	Family
A, B, C, D, E A, B, C, D, E, F	IPR000488	Death domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR007110	Immunoglobulin-like domain	Domain

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.