2GDG

Crystal structure of covalently modified macrophage inhibitory factor

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)
A	d2gdga_	Alpha and beta proteins (a+b)	Tautomerase/MIF	Tautomerase/MIF	MIF-related	Microphage migration inhibition factor (MIF)	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2gdgc_	Alpha and beta proteins (a+b)	Tautomerase/MIF	Tautomerase/MIF	MIF-related	Microphage migration inhibition factor (MIF)	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2gdgb_	Alpha and beta proteins (a+b)	Tautomerase/MIF	Tautomerase/MIF	MIF-related	Microphage migration inhibition factor (MIF)	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)
A	SCOP2 Family	MIF-related	8029415	4001533	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Tautomerase/MIF	8041794	3001770	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Tautomerase/MIF	8041794	3001770	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Tautomerase/MIF	8041794	3001770	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)
A	MIF	e2gdgA1	A: a+b two layers	X: Tautomerase/MIF-like	H: Tautomerase/MIF (From Topology)	T: Tautomerase/MIF	F: MIF	ECOD (1.6)
C	MIF	e2gdgC1	A: a+b two layers	X: Tautomerase/MIF-like	H: Tautomerase/MIF (From Topology)	T: Tautomerase/MIF	F: MIF	ECOD (1.6)
B	MIF	e2gdgB1	A: a+b two layers	X: Tautomerase/MIF-like	H: Tautomerase/MIF (From Topology)	T: Tautomerase/MIF	F: MIF	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.429.10	Alpha Beta	2-Layer Sandwich	Macrophage Migration Inhibitory Factor	Macrophage Migration Inhibitory Factor	CATH (4.3.0)
C	3.30.429.10	Alpha Beta	2-Layer Sandwich	Macrophage Migration Inhibitory Factor	Macrophage Migration Inhibitory Factor	CATH (4.3.0)
B	3.30.429.10	Alpha Beta	2-Layer Sandwich	Macrophage Migration Inhibitory Factor	Macrophage Migration Inhibitory Factor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01187	Macrophage migration inhibitory factor (MIF) (MIF)	Macrophage migration inhibitory factor (MIF)	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Macrophage migration inhibitory factor	protein binding binding enzyme binding protease binding intramolecular oxidoreductase activity, interconverting keto- and enol-groups isomerase activity intramolecular oxidoreductase activity phenylpyruvate tautomerase activity catalytic activity molecular function activator activity signaling receptor binding molecular function regulator activity cytokine activity signaling receptor regulator activity protein binding binding enzyme binding protease binding intramolecular oxidoreductase activity, interconverting keto- and enol-groups isomerase activity intramolecular oxidoreductase activity phenylpyruvate tautomerase activity catalytic activity molecular function activator activity signaling receptor binding molecular function regulator activity cytokine activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity chemoattractant activity cytokine receptor binding intramolecular oxidoreductase activity, transposing C=C bonds dopachrome isomerase activity identical protein binding	regulation of localization positive regulation of arachidonate secretion transport positive regulation of biological process regulation of lipid transport regulation of arachidonate secretion localization arachidonate secretion monocarboxylic acid transport positive regulation of secretion fatty acid transport icosanoid transport regulation of icosanoid secretion icosanoid secretion regulation of localization positive regulation of arachidonate secretion transport positive regulation of biological process regulation of lipid transport regulation of arachidonate secretion localization arachidonate secretion monocarboxylic acid transport positive regulation of secretion fatty acid transport icosanoid transport regulation of icosanoid secretion icosanoid secretion long-chain fatty acid transport positive regulation of icosanoid secretion regulation of biological process organic anion transport carboxylic acid transport secretion arachidonate transport regulation of transport biological regulation lipid localization lipid transport positive regulation of lipid localization establishment of localization regulation of fatty acid transport regulation of secretion positive regulation of organic acid transport organic acid transport positive regulation of lipid transport positive regulation of transport regulation of lipid localization macromolecule localization regulation of organic acid transport positive regulation of fatty acid transport cellular response to stimulus negative regulation of mononuclear cell migration negative regulation of locomotion regulation of cell motility regulation of cellular process response to stimulus negative regulation of biological process negative regulation of chemotaxis macrophage migration taxis negative regulation of macrophage chemotaxis cell migration regulation of immune system process regulation of mononuclear cell migration negative regulation of macrophage migration negative regulation of cell migration chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration response to external stimulus leukocyte migration negative regulation of leukocyte migration regulation of response to stimulus regulation of locomotion response to chemical negative regulation of response to external stimulus negative regulation of cell motility negative regulation of leukocyte chemotaxis regulation of response to external stimulus macrophage chemotaxis regulation of macrophage migration negative regulation of cellular process regulation of cell migration myeloid leukocyte migration cell motility locomotion cell chemotaxis regulation of macrophage chemotaxis negative regulation of response to stimulus regulation of chemotaxis cellular response to chemical stimulus negative regulation of immune system process immune system process mononuclear cell migration cellular process leukocyte chemotaxis positive regulation of cell communication positive regulation of signal transduction signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling immune response regulation of adaptive immune response adaptive immune response positive regulation of immune response regulation of immune response positive regulation of adaptive immune response positive regulation of immune system process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death multicellular organismal process regulation of B cell apoptotic process homeostatic process leukocyte apoptotic process lymphocyte apoptotic process negative regulation of leukocyte apoptotic process negative regulation of mature B cell apoptotic process regulation of leukocyte apoptotic process regulation of lymphocyte apoptotic process mature B cell apoptotic process B cell apoptotic process negative regulation of B cell apoptotic process B cell homeostasis multicellular organismal-level homeostasis leukocyte homeostasis homeostasis of number of cells regulation of mature B cell apoptotic process lymphocyte homeostasis negative regulation of lymphocyte apoptotic process fibroblast proliferation cell population proliferation positive regulation of cell population proliferation regulation of fibroblast proliferation regulation of cell population proliferation positive regulation of fibroblast proliferation icosanoid metabolic process prostaglandin metabolic process unsaturated fatty acid metabolic process oxoacid metabolic process lipid biosynthetic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process prostanoid metabolic process icosanoid biosynthetic process small molecule metabolic process prostaglandin biosynthetic process prostanoid biosynthetic process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process carboxylic acid metabolic process primary metabolic process fatty acid biosynthetic process unsaturated fatty acid biosynthetic process biosynthetic process metabolic process monocarboxylic acid metabolic process lipid metabolic process biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to biotic stimulus defense response to other organism response to stress innate immune response response to external biotic stimulus negative regulation of signaling negative regulation of intracellular signal transduction regulation of cellular response to stress DNA damage response, signal transduction by p53 class mediator negative regulation of cell communication cellular response to stress regulation of response to stress regulation of signal transduction by p53 class mediator negative regulation of DNA damage response, signal transduction by p53 class mediator regulation of DNA damage response, signal transduction by p53 class mediator negative regulation of signal transduction by p53 class mediator signal transduction by p53 class mediator negative regulation of signal transduction DNA damage response signal transduction in response to DNA damage cellular senescence regulation of immune effector process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of myeloid leukocyte cytokine production involved in immune response cytokine production regulation of cytokine production positive regulation of immune effector process positive regulation of macromolecule metabolic process regulation of multicellular organismal process myeloid leukocyte cytokine production cytokine production involved in immune response production of molecular mediator of immune response regulation of biosynthetic process regulation of cytokine production involved in immune response regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process immune effector process regulation of gene expression positive regulation of gene expression positive regulation of cytokine production involved in immune response positive regulation of production of molecular mediator of immune response positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of production of molecular mediator of immune response positive regulation of cytokine production regulation of metabolic process chemokine (C-X-C motif) ligand 2 production regulation of chemokine (C-X-C motif) ligand 2 production positive regulation of chemokine (C-X-C motif) ligand 2 production regulation of chemokine production chemokine production positive regulation of chemokine production regulation of protein metabolic process negative regulation of metabolic process regulation of primary metabolic process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of lipopolysaccharide-mediated signaling pathway positive regulation of response to biotic stimulus regulation of response to biotic stimulus response to lipid cellular response to lipopolysaccharide lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus positive regulation of response to external stimulus response to bacterium cell surface receptor signaling pathway response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to lipid positive regulation of lipopolysaccharide-mediated signaling pathway response to molecule of bacterial origin regulation of intrinsic apoptotic signaling pathway in response to DNA damage regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator negative regulation of apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway by p53 class mediator regulation of apoptotic signaling pathway regulation of intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator regulation of intrinsic apoptotic signaling pathway by p53 class mediator positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process regulation of MAP kinase activity positive regulation of protein serine/threonine kinase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process phosphorus metabolic process protein modification process positive regulation of protein phosphorylation positive regulation of MAP kinase activity protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of molecular function positive regulation of kinase activity regulation of kinase activity regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorus metabolic process regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of molecular function positive regulation of protein modification process positive regulation of protein kinase activity positive regulation of transferase activity positive regulation of catalytic activity regulation of protein kinase activity regulation of phosphorylation myeloid cell apoptotic process negative regulation of myeloid cell apoptotic process regulation of myeloid cell apoptotic process regulation of cellular senescence negative regulation of cellular senescence regulation of prostaglandin secretion prostaglandin secretion prostaglandin secretion involved in immune response lipid export from cell positive regulation of prostaglandin secretion involved in immune response prostaglandin transport positive regulation of secretion by cell regulation of secretion by cell secretion by cell signal release positive regulation of prostaglandin secretion export from cell cell-cell signaling inflammatory response positive regulation of B cell proliferation regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation positive regulation of lymphocyte activation positive regulation of cell activation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation positive regulation of leukocyte activation positive regulation of mononuclear cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation B cell activation cell activation positive regulation of lymphocyte proliferation B cell proliferation positive regulation of B cell activation mononuclear cell proliferation positive regulation of leukocyte proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation protein-containing complex organization protein trimerization cellular component organization cellular component biogenesis cellular component assembly protein homotrimerization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process positive regulation of cAMP/PKA signal transduction cAMP/PKA signal transduction regulation of cAMP/PKA signal transduction regulation of tumor necrosis factor production positive regulation of tumor necrosis factor superfamily cytokine production tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production	cellular anatomical structure myelin sheath cell surface intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen cellular anatomical structure myelin sheath cell surface intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR001398	Macrophage migration inhibitory factor	Family
A, B, C	IPR019829	Macrophage migration inhibitory factor, conserved site	Conserved Site
A, B, C	IPR014347	Tautomerase/MIF superfamily	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.