4GJH | pdb_00004gjh

Crystal Structure of the TRAF domain of TRAF5

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)
C	d4gjhc_	All beta proteins	TRAF domain-like	TRAF domain-like	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d4gjhb_	All beta proteins	TRAF domain-like	TRAF domain-like	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d4gjha_	All beta proteins	TRAF domain-like	TRAF domain-like	automated matches	automated matches	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	SCOP2B Superfamily	TRAF domain-like	8089596	3001027	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TRAF domain-like	8089596	3001027	SCOP2B (2022-06-29)
A	SCOP2 Family	MATH domain	8089595	4002253	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	TRAF domain-like	8089596	3001027	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)
C		e4gjhC1	A: a/b three-layered sandwiches	X: Globin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F:	ECOD (v294.1)
B	Rrf2	e4gjhB1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: Rrf2	ECOD (v294.1)
A	Rrf2	e4gjhA1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: Rrf2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.210.10	Mainly Beta	Sandwich	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2	Chain A	CATH (4.3.0)
B	2.60.210.10	Mainly Beta	Sandwich	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2	Chain A	CATH (4.3.0)
A	2.60.210.10	Mainly Beta	Sandwich	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF21355	TRAF/meprin, MATH domain (TRAF-mep_MATH)	TRAF/meprin, MATH domain	Intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the the meprin and TRAF homology (MATH) domain which adopts a beta-sandwich structure. This is the MATH domain of TNF receptor-associated factors (TRAFs) an ...	Intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the the meprin and TRAF homology (MATH) domain which adopts a beta-sandwich structure. This is the MATH domain of TNF receptor-associated factors (TRAFs) and meprins. In TRAFS, it is essential for self-association and receptor interaction [1-3]. Meprins are mammalian tissue-specific metalloendopeptidases involved developmental, normal and pathological processes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	TNF receptor-associated factor 5	protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity thioesterase binding protein binding binding enzyme binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity thioesterase binding protein binding binding enzyme binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity ubiquitin protein ligase binding ubiquitin-like protein ligase binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding signaling receptor binding 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 apoptotic process cell death programmed cell death regulation of apoptotic process regulation of programmed cell death cell surface receptor signaling pathway cellular response to interleukin-17 response to interleukin-17 response to cytokine cytokine-mediated signaling pathway response to peptide interleukin-17-mediated signaling pathway response to chemical cellular response to cytokine stimulus negative regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process negative regulation of metabolic process primary metabolic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process negative regulation of RNA metabolic process catabolic process RNA metabolic process macromolecule catabolic process negative regulation of mRNA metabolic process regulation of mRNA catabolic process positive regulation of biosynthetic process negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process regulation of mRNA stability RNA stabilization negative regulation of biosynthetic process positive regulation of gene expression regulation of RNA stability regulation of mRNA metabolic process CD40 signaling pathway cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway response to tumor necrosis factor	cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex CD40 receptor complex receptor complex intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR027130	TNF receptor-associated factor 5, C3HC3D-type RING-HC finger	Domain
A, B, C	IPR012227	TNF receptor-associated factor TRAF, metazoa	Family
A, B, C	IPR001293	Zinc finger, TRAF-type	Domain
A, B, C	IPR002083	MATH/TRAF domain	Domain
A, B, C	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A, B, C	IPR049342	TRAF1-6, MATH domain	Domain
A, B, C	IPR049440	TNF receptor-associated factor 3/5, RING domain	Domain
A, B, C	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C	IPR001841	Zinc finger, RING-type	Domain
A, B, C	IPR008974	TRAF-like	Homologous Superfamily

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.