8PVU | pdb_00008pvu

Cryo-EM structure of DHS-ERK2 complex with 1:1 stoichiometry refined in C1 symmetry

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth E]	SCOP2B Superfamily	Protein kinase-like (PK-like)	8036635	3000066	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	DHS-like NAD/FAD-binding domain	8044242	3001728	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	DHS-like NAD/FAD-binding domain	8044242	3001728	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	DHS-like NAD/FAD-binding domain	8044242	3001728	SCOP2B (2022-06-29)
E [auth D]	SCOP2B Superfamily	DHS-like NAD/FAD-binding domain	8044242	3001728	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth E]	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain		Domain
B [auth A], C [auth B], D [auth C], E [auth D]	PF01916	Deoxyhypusine synthase (DS)	Deoxyhypusine synthase	Eukaryotic initiation factor 5A (eIF-5A) contains an unusual amino acid, hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The first step in the post-translational formation of hypusine is catalysed by the enzyme deoxyhypusine synthase (DS) EC:1.1 ...	Eukaryotic initiation factor 5A (eIF-5A) contains an unusual amino acid, hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The first step in the post-translational formation of hypusine is catalysed by the enzyme deoxyhypusine synthase (DS) EC:1.1.1.249. The modified version of eIF-5A, and DS, are required for eukaryotic cell proliferation [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E]	Mitogen-activated protein kinase 1	phosphoprotein binding phosphotyrosine residue binding protein binding binding protein phosphorylated amino acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding phosphoprotein binding phosphotyrosine residue binding protein binding binding protein phosphorylated amino acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity MAP kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups phosphatase binding enzyme binding RNA polymerase II CTD heptapeptide repeat modifying activity RNA polymerase II CTD heptapeptide repeat kinase activity identical protein binding protein serine kinase activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process pyrimidine nucleobase metabolic process pyrimidine-containing compound metabolic process nucleobase-containing small molecule metabolic process nucleobase metabolic process small molecule metabolic process metabolic process primary metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process nucleobase-containing compound metabolic process pyrimidine nucleobase metabolic process pyrimidine-containing compound metabolic process nucleobase-containing small molecule metabolic process nucleobase metabolic process small molecule metabolic process metabolic process primary metabolic process cytosine metabolic process developmental process multicellular organismal process tube development animal organ development respiratory tube development anatomical structure morphogenesis multicellular organism development anatomical structure development lung morphogenesis lung development respiratory system development animal organ morphogenesis system development apoptotic process cell death programmed cell death protein phosphorylation phosphorylation macromolecule modification peptidyl-amino acid modification phosphate-containing compound metabolic process peptidyl-threonine modification protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process peptidyl-threonine phosphorylation regulation of biological process regulation of cellular process cell surface receptor signaling pathway signaling biological regulation insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction enzyme-linked receptor protein signaling pathway regulation of cellular component organization Golgi inheritance organelle inheritance regulation of organelle organization cellular component organization regulation of Golgi organization organelle organization regulation of Golgi inheritance cellular component organization or biogenesis Golgi organization endomembrane system organization ERBB signaling pathway intracellular signal transduction intracellular signaling cassette MAPK cascade ear morphogenesis embryonic organ morphogenesis ear development sensory organ development embryonic morphogenesis embryo development outer ear morphogenesis sensory organ morphogenesis embryonic organ development positive regulation of locomotion regulation of cell motility macrophage migration positive regulation of chemotaxis positive regulation of cell migration taxis cell migration regulation of immune system process regulation of mononuclear cell migration positive regulation of immune system process chemotaxis regulation of leukocyte chemotaxis regulation of leukocyte migration positive regulation of macrophage migration response to external stimulus positive regulation of leukocyte chemotaxis granulocyte migration leukocyte migration regulation of response to stimulus response to chemical regulation of locomotion regulation of response to external stimulus macrophage chemotaxis positive regulation of biological process positive regulation of response to stimulus regulation of granulocyte chemotaxis regulation of macrophage migration positive regulation of response to external stimulus positive regulation of cell motility regulation of cell migration myeloid leukocyte migration positive regulation of mononuclear cell migration cell motility locomotion positive regulation of cellular process cell chemotaxis regulation of macrophage chemotaxis positive regulation of leukocyte migration regulation of chemotaxis cellular response to chemical stimulus immune system process granulocyte chemotaxis mononuclear cell migration positive regulation of macrophage chemotaxis leukocyte chemotaxis ERBB2 signaling pathway ERBB2-ERBB3 signaling pathway ERBB3 signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to cytokine stimulus interleukin-34-mediated signaling pathway regulation of protein stability regulation of biological quality epidermal growth factor receptor signaling pathway response to endogenous stimulus response to epidermal growth factor response to growth factor trans-synaptic signaling synaptic signaling anterograde trans-synaptic signaling cell-cell signaling chemical synaptic transmission positive regulation of organelle organization regulation of telomere maintenance positive regulation of cellular component organization telomere organization regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of telomere maintenance chromosome organization regulation of chromosome organization regulation of macromolecule metabolic process DNA metabolic process nucleic acid metabolic process positive regulation of chromosome organization telomere maintenance positive regulation of DNA metabolic process regulation of metabolic process regulation of DNA metabolic process regulation of developmental process cellular developmental process negative regulation of developmental process negative regulation of biological process regulation of cell differentiation cell differentiation negative regulation of cellular process negative regulation of cell differentiation response to nutrient levels cellular response to amino acid starvation cellular response to starvation cellular response to nutrient levels response to amino acid starvation response to starvation head development face development immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response immune response-activating cell surface receptor signaling pathway immune response B cell receptor signaling pathway regulation of immune response antigen receptor-mediated signaling pathway activation of immune response labyrinthine layer blood vessel development placenta blood vessel development placenta development chordate embryonic development labyrinthine layer development in utero embryonic development vasculature development circulatory system development embryonic placenta development embryo development ending in birth or egg hatching blood vessel development T cell receptor signaling pathway immune system development gland development hematopoietic or lymphoid organ development thymus development thyroid gland development endocrine system development stress-activated MAPK cascade stress-activated protein kinase signaling cascade localization import into cell transport endocytosis caveolin-mediated endocytosis establishment of localization vesicle-mediated transport positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-threonine phosphorylation positive regulation of phosphate metabolic process positive regulation of protein modification process positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process positive regulation of peptidyl-threonine phosphorylation regulation of protein metabolic process regulation of phosphorus metabolic process regulation of phosphorylation ERK1 and ERK2 cascade response to dsRNA response to nitrogen compound response to exogenous dsRNA peripheral nervous system development cell development nervous system development glial cell development neurogenesis Schwann cell development gliogenesis glial cell differentiation Schwann cell differentiation biological process involved in interspecies interaction between organisms response to lipid cellular response to lipopolysaccharide response to biotic stimulus lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus response to bacterium response to external biotic stimulus response to other organism 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 response to molecule of bacterial origin regulation of steroid biosynthetic process regulation of cholesterol biosynthetic process regulation of cholesterol metabolic process steroid metabolic process regulation of lipid metabolic process sterol metabolic process cholesterol metabolic process lipid biosynthetic process alcohol metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process positive regulation of lipid metabolic process steroid biosynthetic process regulation of biosynthetic process secondary alcohol biosynthetic process regulation of alcohol biosynthetic process small molecule biosynthetic process regulation of steroid metabolic process cholesterol biosynthetic process positive regulation of cholesterol biosynthetic process secondary alcohol metabolic process positive regulation of steroid biosynthetic process biosynthetic process sterol biosynthetic process positive regulation of lipid biosynthetic process regulation of sterol biosynthetic process alcohol biosynthetic process positive regulation of cholesterol metabolic process positive regulation of steroid metabolic process regulation of lipid biosynthetic process positive regulation of small molecule metabolic process positive regulation of alcohol biosynthetic process positive regulation of sterol biosynthetic process lipid metabolic process ossification regulation of multicellular organismal process regulation of ossification regulation of cytoskeleton organization cytoskeleton organization epithelium development cell population proliferation mammary gland development tissue development mammary gland epithelium development epithelial cell proliferation mammary gland epithelial cell proliferation regulation of cellular response to stress regulation of signal transduction regulation of intracellular signal transduction regulation of response to stress regulation of signaling regulation of stress-activated protein kinase signaling cascade regulation of MAPK cascade regulation of stress-activated MAPK cascade regulation of cell communication trachea morphogenesis trachea formation trachea development anatomical structure formation involved in morphogenesis animal organ formation regulation of localization cellular localization regulation of transport intracellular transport regulation of vesicle-mediated transport endosomal transport vesicle-mediated transport between endosomal compartments regulation of early endosome to late endosome transport early endosome to late endosome transport regulation of cellular localization establishment of localization in cell regulation of intracellular transport astrocyte differentiation central nervous system development Bergmann glial cell differentiation cellular response to tumor necrosis factor response to tumor necrosis factor homeostatic process cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis regulation of pH monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis regulation of cellular pH intracellular monoatomic ion homeostasis regulation of leukocyte proliferation positive regulation of cell population proliferation leukocyte proliferation macrophage proliferation regulation of cell population proliferation positive regulation of leukocyte proliferation positive regulation of macrophage proliferation regulation of macrophage proliferation cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway cellular response to endogenous stimulus response to hormone cellular response to hormone stimulus cellular response to peptide hormone stimulus response to insulin cellular response to insulin stimulus stem cell development heart development neural crest cell differentiation cardiac neural crest cell development involved in heart development neural crest cell development mesenchyme development cardiocyte differentiation stem cell differentiation cardiac neural crest cell differentiation involved in heart development mesenchymal cell differentiation behavior system process learning or memory nervous system process cognition myelination axon ensheathment ensheathment of neurons response to nicotine positive regulation of cell communication modulation of chemical synaptic transmission long-term synaptic potentiation regulation of synaptic plasticity positive regulation of synaptic transmission regulation of trans-synaptic signaling positive regulation of signaling	cell projection cellular anatomical structure pseudopodium plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system cytoskeleton cell projection cellular anatomical structure pseudopodium plasma membrane bounded cell projection intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system cytoskeleton membraneless organelle intracellular membraneless organelle membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen endoplasmic reticulum cilium ciliary basal body microtubule organizing center microtubule cytoskeleton mitochondrion anchoring junction cell junction focal adhesion cell-substrate junction centrosome membrane microdomain cell periphery membrane raft plasma membrane raft membrane plasma membrane plasma membrane region caveola lytic vacuole intracellular vesicle cytoplasmic vesicle lumen vacuolar lumen cytoplasmic vesicle vesicle lysosome vesicle lumen azurophil granule vacuole secretory granule lumen azurophil granule lumen secretory granule primary lysosome secretory vesicle mitotic spindle spindle ficolin-1-rich granule ficolin-1-rich granule lumen nucleus nucleoplasm nuclear lumen early endosome endosome extracellular region synapse late endosome
B [auth A], C [auth B], D [auth C], E [auth D]	Deoxyhypusine synthase	deoxyhypusine synthase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity identical protein binding protein binding binding	regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process spermidine catabolic process catabolic process polyamine metabolic process biogenic amine catabolic process amine metabolic process regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process cellular process positive regulation of cellular process spermidine catabolic process catabolic process polyamine metabolic process biogenic amine catabolic process amine metabolic process spermidine metabolic process metabolic process polyamine catabolic process biogenic amine metabolic process amine catabolic process peptidyl-lysine modification to peptidyl-hypusine peptidyl-lysine modification primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process macromolecule modification peptidyl-amino acid modification protein metabolic process macromolecule metabolic process protein modification process multicellular organismal process regulation of leukocyte activation regulation of cell activation positive regulation of cell activation T cell activation lymphocyte proliferation positive regulation of leukocyte activation regulation of immune system process positive regulation of immune system process regulation of leukocyte proliferation positive regulation of T cell activation positive regulation of lymphocyte proliferation positive regulation of T cell proliferation mononuclear cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation positive regulation of multicellular organismal process positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte proliferation leukocyte cell-cell adhesion leukocyte activation positive regulation of cell-cell adhesion positive regulation of lymphocyte activation cell adhesion cell-cell adhesion positive regulation of mononuclear cell proliferation regulation of multicellular organismal process regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation regulation of T cell proliferation immune system process regulation of mononuclear cell proliferation regulation of lymphocyte activation chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis translation protein biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth E]	IPR003527	Mitogen-activated protein (MAP) kinase, conserved site	Conserved Site
A [auth E]	IPR000719	Protein kinase domain	Domain
A [auth E]	IPR050117	Mitogen-activated protein (MAP) kinase	Family
A [auth E]	IPR017441	Protein kinase, ATP binding site	Binding Site
A [auth E]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A [auth E]	IPR008349	Mitogen-activated protein (MAP) kinase, ERK1/2	Family
A [auth E]	IPR008271	Serine/threonine-protein kinase, active site	Active Site
B [auth A], C [auth B], D [auth C], E [auth D]	IPR036982	Deoxyhypusine synthase superfamily	Homologous Superfamily
B [auth A], C [auth B], D [auth C], E [auth D]	IPR029035	DHS-like NAD/FAD-binding domain superfamily	Homologous Superfamily
B [auth A], C [auth B], D [auth C], E [auth D]	IPR002773	Deoxyhypusine synthase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth E]	Pharos: P28482	trigeminal neuralgia squamous cell carcinoma substance withdrawal syndrome cardiomyopathy chromosome 22q11.2 deletion syndrome, distal female infertility head and neck cancer Neoplasm Metastasis brain ischemia Sezary syndrome cocaine abuse streptococcal pneumonia cocaine dependence extrahepatic cholestasis ovarian cancer trigeminal neuralgia squamous cell carcinoma substance withdrawal syndrome cardiomyopathy chromosome 22q11.2 deletion syndrome, distal female infertility head and neck cancer Neoplasm Metastasis brain ischemia Sezary syndrome cocaine abuse streptococcal pneumonia cocaine dependence extrahepatic cholestasis ovarian cancer juvenile idiopathic arthritis esophageal adenocarcinoma tuberculosis gastric neoplasm medulloblastoma neuronal ceroid lipofuscinosis 6 ovarian neoplasm psoriasis schizophrenia kidney neoplasm lung benign neoplasm malignant tumor of neck glioblastoma head and neck neoplasm neoplasm of neck amyotrophic lateral sclerosis osteosarcoma Pick disease atypical teratoid rhabdoid tumor breast cancer juvenile dermatomyositis large cell medulloblastoma gastric cancer hereditary diffuse gastric adenocarcinoma primitive neuroectodermal tumor bipolar disorder cancer IgA glomerulonephritis kidney cancer
B [auth A], C [auth B], D [auth C], E [auth D]	Pharos: P49366	acute myeloid leukemia pancreatic ductal adenocarcinoma pulmonary emphysema diabetes mellitus plasma cell myeloma subependymal giant cell astrocytoma osteosarcoma psoriasis

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.