6MYD | pdb_00006myd

Structure of zebrafish TRAF6 in complex with STING CTT

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	cNMP_binding	e6mydC1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: cNMP_binding	ECOD (v294.1)
A	cNMP_binding	e6mydA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: cNMP_binding	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 (utative)
A	2.60.210.10	Mainly Beta	Sandwich	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, 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
B, D	STING CTT, Transmembrane protein 173	guanyl nucleotide binding binding cyclic nucleotide binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding cyclic-di-GMP binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding guanyl nucleotide binding binding cyclic nucleotide binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding cyclic-di-GMP binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity monoatomic cation channel activity passive transmembrane transporter activity monoatomic ion channel activity proton channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cyclic GMP-AMP binding adenyl ribonucleotide binding adenyl nucleotide binding 2',3'-cyclic GMP-AMP binding	cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response cellular process activation of immune response regulation of biosynthetic process multicellular organismal process type I interferon production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process cytokine production regulation of cytokine production metabolic process regulation of macromolecule biosynthetic process regulation of multicellular organismal process macromolecule metabolic process regulation of metabolic process regulation of type I interferon production autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular component organization or biogenesis process utilizing autophagic mechanism cGAS/STING signaling pathway positive regulation of autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of macroautophagy positive regulation of macroautophagy positive regulation of cellular process positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction regulation of non-canonical NF-kappaB signal transduction regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling non-canonical NF-kappaB signal transduction positive regulation of intracellular signal transduction regulation of cell communication positive regulation of non-canonical NF-kappaB signal transduction positive regulation of signaling regulation of defense response to virus defense response to virus positive regulation of defense response to virus by host regulation of defense response to virus by host response to virus positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of type I interferon production positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of cytokine production reticulophagy	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane cytoplasmic vesicle intracellular vesicle vesicle vacuole autophagosome vacuolar membrane autophagosome membrane bounding membrane of organelle Golgi membrane Golgi apparatus endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment perinuclear region of cytoplasm
A, C	TNF receptor-associated factor 6	protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity 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 cation binding transition metal ion binding protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity 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 cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding protein binding signaling receptor binding cytokine receptor binding tumor necrosis factor receptor superfamily binding tumor necrosis factor receptor binding	cellular response to stimulus biological process involved in interspecies interaction between organisms regulation of cellular process response to lipid response to stimulus signaling cellular response to lipopolysaccharide response to biotic stimulus cell communication lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus response to bacterium response to external biotic stimulus signal transduction cellular response to stimulus biological process involved in interspecies interaction between organisms regulation of cellular process response to lipid response to stimulus signaling cellular response to lipopolysaccharide response to biotic stimulus cell communication lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus response to bacterium response to external biotic stimulus signal transduction regulation of biological process cell surface receptor signaling pathway response to other organism biological regulation response to oxygen-containing compound response to external stimulus cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical cellular response to lipid cellular process response to molecule of bacterial origin immune response defense response defense response to symbiont immune system process defense response to other organism response to stress innate immune response regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death non-canonical NF-kappaB signal transduction intracellular signal transduction intracellular signaling cassette protein polyubiquitination primary metabolic process protein K63-linked ubiquitination protein ubiquitination macromolecule modification metabolic process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process response to virus regulation of signaling regulation of signal transduction canonical NF-kappaB signal transduction regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction	cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm synapse cell junction glutamatergic synapse lipid droplet intracellular organelle organelle membraneless organelle intracellular membraneless organelle cytoplasmic side of plasma membrane cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm synapse cell junction glutamatergic synapse lipid droplet intracellular organelle organelle membraneless organelle intracellular membraneless organelle cytoplasmic side of plasma membrane cytoplasmic side of membrane membrane plasma membrane side of membrane membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR029158	Stimulator of interferon genes protein	Family
B, D	IPR055434	STING, transmembrane domain	Domain
B, D	IPR047191	Stimulator of interferon genes protein, C-terminal	Domain
B, D	IPR038623	Stimulator of interferon genes protein, C-terminal domain superfamily	Homologous Superfamily
B, D	IPR055432	STING, ligand-binding domain	Domain
A, C	IPR012227	TNF receptor-associated factor TRAF, metazoa	Family
A, C	IPR001293	Zinc finger, TRAF-type	Domain
A, C	IPR037309	TNF receptor-associated factor 6, MATH domain	Domain
A, C	IPR002083	MATH/TRAF domain	Domain
A, C	IPR018957	Zinc finger, C3HC4 RING-type	Domain
A, C	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A, C	IPR049342	TRAF1-6, MATH domain	Domain
A, C	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, C	IPR027139	TNF receptor-associated factor 6, C3HC3D-type RING zinc finger	Domain
A, C	IPR001841	Zinc finger, RING-type	Domain
A, 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.