5XMX | pdb_00005xmx

Co-crystal structure of Inhibitor compound in complex with human PPARdelta LBD

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)
B	d5xmxb_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Peroxisome proliferator-activated receptor delta, PPAR-DELTA	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d5xmxa_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Peroxisome proliferator-activated receptor delta, PPAR-DELTA	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)
B	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8038741	3001442	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8038741	3001442	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)
B	DEAD	e5xmxB1	A: alpha bundles	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: DEAD	ECOD (develop294)
A	VP4_haemagglut	e5xmxA1	A: alpha bundles	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.565.10	Mainly Alpha	Orthogonal Bundle	Retinoid X Receptor	Retinoid X Receptor	CATH (4.3.0)
A	1.10.565.10	Mainly Alpha	Orthogonal Bundle	Retinoid X Receptor	Retinoid X Receptor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00104	Ligand-binding domain of nuclear hormone receptor (Hormone_recep)	Ligand-binding domain of nuclear hormone receptor	This all helical domain is involved in binding the hormone in these receptors.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Peroxisome proliferator-activated receptor delta	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding NF-kappaB binding DNA binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity nuclear receptor activity molecular transducer activity signaling receptor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding NF-kappaB binding DNA binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity nuclear receptor activity molecular transducer activity signaling receptor activity ligand-modulated transcription factor activity sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding fatty acid binding linoleic acid binding organic acid binding long-chain fatty acid binding ion binding anion binding lipid binding carboxylic acid binding monocarboxylic acid binding small molecule binding DNA-binding transcription repressor activity, RNA polymerase II-specific DNA-binding transcription repressor activity RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding nuclear steroid receptor activity transcription coregulator binding transcription coactivator binding cation binding transition metal ion binding zinc ion binding metal ion binding	developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of cellular process oxoacid metabolic process ketone metabolic process regulation of lipid metabolic process positive regulation of biological process organic acid metabolic process developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development regulation of cellular process oxoacid metabolic process ketone metabolic process regulation of lipid metabolic process positive regulation of biological process organic acid metabolic process regulation of primary metabolic process regulation of fatty acid oxidation positive regulation of metabolic process fatty acid oxidation regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process lipid oxidation positive regulation of cellular process positive regulation of fatty acid metabolic process fatty acid metabolic process regulation of biological process biological regulation carboxylic acid metabolic process lipid modification primary metabolic process regulation of ketone metabolic process positive regulation of fatty acid oxidation regulation of fatty acid metabolic process metabolic process cellular process monocarboxylic acid metabolic process positive regulation of small molecule metabolic process regulation of metabolic process lipid metabolic process regulation of biosynthetic process negative regulation of collagen metabolic process negative regulation of metabolic process negative regulation of biological process collagen biosynthetic process regulation of collagen biosynthetic process regulation of collagen metabolic process negative regulation of collagen biosynthetic process biosynthetic process negative regulation of biosynthetic process negative regulation of cellular process collagen metabolic process negative regulation of locomotion regulation of cell motility regulation of smooth muscle cell migration smooth muscle cell migration muscle cell migration negative regulation of smooth muscle cell migration regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility locomotion negative regulation of cell migration cell population proliferation positive regulation of cell population proliferation fat cell proliferation regulation of cell population proliferation positive regulation of fat cell proliferation regulation of fat cell proliferation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process macromolecule metabolic process response to decreased oxygen levels cellular response to stimulus response to stimulus cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to chemical stimulus cellular response to stress response to hypoxia response to stress response to chemical response to oxygen levels response to abiotic stimulus cellular response to nutrient levels response to nutrient levels apoptotic process cell death programmed cell death epithelial cell proliferation keratinocyte proliferation regulation of growth regulation of cellular component organization growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth cellular component organization or biogenesis response to lipid response to nutrient response to vitamin A response to vitamin lipid biosynthetic process phospholipid biosynthetic process phospholipid metabolic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process phosphorus metabolic process monosaccharide metabolic process carbohydrate metabolic process hexose metabolic process glucose metabolic process positive regulation of myoblast proliferation myoblast proliferation regulation of myoblast proliferation transmembrane transport localization hexose transmembrane transport transport D-glucose transmembrane transport carbohydrate transport monosaccharide transmembrane transport carbohydrate transmembrane transport establishment of localization RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process fat cell differentiation positive regulation of fat cell differentiation regulation of developmental process cellular developmental process regulation of cell differentiation positive regulation of developmental process positive regulation of cell differentiation cell differentiation regulation of fat cell differentiation negative regulation of cell population proliferation regulation of epithelial cell proliferation negative regulation of epithelial cell proliferation positive regulation of DNA-templated transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process intracellular receptor signaling pathway signaling intracellular signal transduction cell communication signal transduction epidermis development positive regulation of epidermis development tissue development regulation of epidermis development axon ensheathment ensheathment of neurons nervous system development carbohydrate derivative metabolic process protein metabolic process proteoglycan metabolic process glycoprotein metabolic process epithelium migration tissue migration ameboidal-type cell migration keratinocyte migration epithelial cell migration connective tissue development adipose tissue development intracellular signaling cassette phosphatidylinositol 3-kinase/protein kinase B signal transduction lipid catabolic process catabolic process organic acid catabolic process fatty acid catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process fatty acid beta-oxidation small molecule catabolic process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process cholesterol storage regulation of localization negative regulation of cholesterol storage lipid storage lipid localization negative regulation of lipid localization regulation of lipid storage regulation of lipid localization negative regulation of lipid storage macromolecule localization nutrient storage regulation of cholesterol storage negative regulation of developmental process muscle structure development negative regulation of myoblast differentiation regulation of myoblast differentiation negative regulation of cell differentiation myoblast differentiation response to endogenous stimulus hormone-mediated signaling pathway cellular response to endogenous stimulus response to hormone cellular response to hormone stimulus response to activity regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus response to external stimulus regulation of inflammatory response regulation of response to stimulus negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response regulation of smooth muscle cell proliferation smooth muscle cell proliferation negative regulation of smooth muscle cell proliferation muscle cell proliferation biological process involved in interspecies interaction between organisms response to other organism cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound response to biotic stimulus cellular response to biotic stimulus response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin multicellular organismal-level homeostasis homeostatic process energy homeostasis generation of precursor metabolites and energy positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signal transduction regulation of signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction regulation of signaling positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of cell communication positive regulation of signaling secondary alcohol metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process response to hexose response to monosaccharide response to carbohydrate response to glucose positive regulation of skeletal muscle tissue regeneration tissue regeneration skeletal muscle tissue regeneration developmental growth regeneration regulation of multicellular organismal process positive regulation of developmental growth regulation of multicellular organismal development regulation of developmental growth positive regulation of growth regulation of skeletal muscle tissue regeneration multi-multicellular organism process reproductive process female pregnancy embryo implantation multi-organism reproductive process regulation of tube diameter system process regulation of tube size circulatory system process vascular process in circulatory system blood vessel diameter maintenance regulation of biological quality vasodilation blood circulation regulation of anatomical structure size organic anion transport carboxylic acid transport lipid transport organic acid transport monocarboxylic acid transport fatty acid transport negative regulation of miRNA transcription miRNA transcription regulation of miRNA metabolic process miRNA metabolic process negative regulation of miRNA metabolic process regulation of miRNA transcription establishment of protein localization nitrogen compound transport positive regulation of establishment of protein localization carbohydrate homeostasis establishment of localization in cell positive regulation of insulin secretion involved in cellular response to glucose stimulus positive regulation of insulin secretion intracellular protein localization regulation of peptide hormone secretion regulation of hormone levels positive regulation of peptide hormone secretion establishment of protein localization to extracellular region intracellular glucose homeostasis protein secretion regulation of protein secretion regulation of secretion cellular response to carbohydrate stimulus chemical homeostasis glucose homeostasis positive regulation of protein localization insulin secretion involved in cellular response to glucose stimulus cellular localization regulation of hormone secretion regulation of protein localization regulation of peptide secretion positive regulation of secretion by cell hormone secretion protein localization to extracellular region positive regulation of protein transport peptide secretion regulation of secretion by cell secretion by cell positive regulation of hormone secretion positive regulation of secretion signal release cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus positive regulation of peptide secretion regulation of transport secretion regulation of peptide transport regulation of establishment of protein localization export from cell cell-cell signaling cellular response to glucose stimulus regulation of protein transport positive regulation of protein secretion peptide transport cellular homeostasis positive regulation of transport regulation of cellular localization protein transport regulation of insulin secretion peptide hormone secretion regulation of insulin secretion involved in cellular response to glucose stimulus hormone transport insulin secretion placenta development maternal process involved in female pregnancy multicellular organismal reproductive process developmental process involved in reproduction maternal placenta development decidualization skeletal muscle satellite cell proliferation regulation of skeletal muscle satellite cell proliferation skeletal muscle cell proliferation regulation of skeletal muscle cell proliferation striated muscle cell proliferation wound healing response to wounding apoptotic signaling pathway cell adhesion cell-substrate adhesion	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex transcription regulator complex intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A, B	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A, B	IPR003074	Peroxisome proliferator-activated receptor	Family
A, B	IPR050234	Nuclear hormone receptor family NR1 subfamily	Family
A, B	IPR003075	Peroxisome proliferator-activated receptor, beta	Family
A, B	IPR001723	Nuclear hormone receptor	Family
A, B	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
A, B	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q03181	cardiomyopathy non-alcoholic fatty liver disease peripheral neuropathy skin cancer Cardiomegaly skin neoplasm obesity disorder peripheral nervous system disease alcoholic liver diseases melanoma ovarian cancer astrocytic tumor fatty liver disease pancreatic intraductal papillary-mucinous carcinoma psoriasis cardiomyopathy non-alcoholic fatty liver disease peripheral neuropathy skin cancer Cardiomegaly skin neoplasm obesity disorder peripheral nervous system disease alcoholic liver diseases melanoma ovarian cancer astrocytic tumor fatty liver disease pancreatic intraductal papillary-mucinous carcinoma psoriasis acute promyelocytic leukemia bipolar disorder large cell medulloblastoma

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.