3C9W | pdb_00003c9w

Crystal Structure of ERK-2 with hypothemycin covalently bound

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)
B	d3c9wb2	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase Erk2	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d3c9wb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d3c9wa2	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase Erk2	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d3c9wa3	Artifacts	Tags	Tags	Tags	N-terminal Tags	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8036640	3000066	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Protein kinase-like (PK-like)	8036640	3000066	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	Pkinase	e3c9wB1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: Pkinase	ECOD (develop294)
A	Pkinase	e3c9wA1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: Pkinase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
B	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
A	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
A	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Mitogen-activated protein kinase 1	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 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 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 protein binding kinase binding enzyme binding protein kinase binding phosphoprotein binding phosphotyrosine residue binding protein phosphorylated amino acid binding phosphatase binding RNA polymerase II CTD heptapeptide repeat modifying activity RNA polymerase II CTD heptapeptide repeat kinase activity mitogen-activated protein kinase kinase kinase binding identical protein binding protein serine kinase activity DNA binding double-stranded DNA binding nucleic acid binding	nucleoside phosphate metabolic process nucleotide biosynthetic process primary metabolic process diadenosine polyphosphate metabolic process nucleobase-containing compound biosynthetic process nucleotide metabolic process diadenosine polyphosphate biosynthetic process nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleobase-containing small molecule metabolic process nucleoside phosphate biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate metabolic process nucleotide biosynthetic process primary metabolic process diadenosine polyphosphate metabolic process nucleobase-containing compound biosynthetic process nucleotide metabolic process diadenosine polyphosphate biosynthetic process nucleobase-containing compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleobase-containing small molecule metabolic process nucleoside phosphate biosynthetic process phosphate-containing compound metabolic process metabolic process cellular process small molecule metabolic process phosphorus metabolic process diadenosine tetraphosphate biosynthetic process cellular response to stimulus cellular response to nitrogen compound response to stimulus response to endogenous stimulus response to peptide hormone cellular response to peptide hormone stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular response to insulin-like growth factor stimulus cellular response to hormone stimulus developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development response to ketone response to lipid response to testosterone apoptotic process cell death programmed cell death response to toxic substance 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 response to prostaglandin response to alcohol cellular response to prostaglandin stimulus cellular response to prostaglandin E stimulus cellular response to alcohol cellular response to lipid response to prostaglandin E cellular response to ketone ear morphogenesis embryonic organ morphogenesis ear development sensory organ development embryonic morphogenesis embryo development anatomical structure morphogenesis outer ear morphogenesis sensory organ morphogenesis animal 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 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 immune system process granulocyte chemotaxis mononuclear cell migration positive regulation of macrophage chemotaxis leukocyte chemotaxis ERBB2 signaling pathway ERBB2-ERBB3 signaling pathway ERBB signaling pathway ERBB3 signaling pathway response to epidermal growth factor response to growth factor cellular response to toxic substance 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 macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process response to hydrogen peroxide response to oxidative stress response to stress response to reactive oxygen species thyroid gland development endocrine system development gland development intracellular signal transduction intracellular signaling cassette MAPK cascade ERK1 and ERK2 cascade response to dsRNA response to exogenous dsRNA 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 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 regulation of localization cellular localization transport regulation of transport intracellular transport regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport endosomal transport vesicle-mediated transport between endosomal compartments regulation of early endosome to late endosome transport localization early endosome to late endosome transport regulation of cellular localization establishment of localization in cell regulation of intracellular transport cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation response to peptide cellular response to tumor necrosis factor response to cytokine cellular response to cytokine stimulus 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 cellular response to methionine cellular response to acid chemical cellular response to amino acid stimulus response to nutrient levels response to nutrient response to amino acid cellular response to nutrient levels response to acid chemical response to methionine cellular response to nutrient insulin receptor signaling pathway response to insulin cellular response to insulin stimulus multi-multicellular organism process placenta development reproductive process maternal process involved in female pregnancy multicellular organismal reproductive process developmental process involved in reproduction tissue development maternal placenta development female pregnancy multi-organism reproductive process decidualization system process sensory perception nervous system process sensory perception of pain cellular response to growth factor stimulus cellular response to epidermal growth factor stimulus biological process involved in interspecies interaction between organisms response to other organism response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin response to estradiol cellular response to stress DNA damage response pyrimidine nucleobase metabolic process pyrimidine-containing compound metabolic process nucleobase metabolic process cytosine metabolic process ovulation cycle rhythmic process estrous cycle tube development respiratory tube development lung morphogenesis lung development respiratory system development regulation of growth regulation of developmental process regulation of cardiac muscle tissue growth developmental growth cardiac muscle cell proliferation organ growth striated muscle tissue development positive regulation of developmental process positive regulation of cardiac muscle cell proliferation regulation of organ growth regulation of heart growth regulation of cardiac muscle cell proliferation muscle cell proliferation cardiac muscle tissue growth muscle tissue development positive regulation of developmental growth positive regulation of heart growth striated muscle cell proliferation heart growth regulation of multicellular organismal development regulation of developmental growth cardiac muscle tissue development positive regulation of organ growth growth positive regulation of growth positive regulation of cardiac muscle tissue growth positive regulation of multicellular organismal process establishment of protein localization regulation of protein localization nucleocytoplasmic transport positive regulation of nucleocytoplasmic transport nuclear transport positive regulation of establishment of protein localization regulation of protein localization to nucleus positive regulation of protein transport import into nucleus regulation of protein import into nucleus protein import into nucleus positive regulation of intracellular transport intracellular protein localization positive regulation of protein localization to nucleus regulation of establishment of protein localization positive regulation of protein import into nucleus regulation of nucleocytoplasmic transport protein localization to nucleus regulation of protein transport establishment of protein localization to organelle positive regulation of transport protein transport macromolecule localization protein localization to organelle positive regulation of protein localization regulation of intracellular protein transport positive regulation of intracellular protein transport intracellular protein transport cytokine-mediated signaling pathway interleukin-34-mediated signaling pathway epidermal growth factor receptor signaling pathway protein phosphorylation phosphorylation peptidyl-serine modification peptidyl-serine phosphorylation macromolecule modification peptidyl-amino acid modification protein metabolic process protein modification 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 cellular response to amino acid starvation cellular response to starvation 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 chordate embryonic development labyrinthine layer development in utero embryonic development vasculature development embryonic placenta development embryo development ending in birth or egg hatching blood vessel development T cell receptor signaling pathway immune system development hematopoietic or lymphoid organ development thymus development response to estrogen cellular response to platelet-derived growth factor stimulus response to platelet-derived growth factor stress-activated MAPK cascade stress-activated protein kinase signaling cascade import into cell endocytosis caveolin-mediated endocytosis peripheral nervous system development cell development nervous system development glial cell development neurogenesis Schwann cell development gliogenesis glial cell differentiation Schwann cell differentiation cellular response to lipopolysaccharide lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus cellular response to molecule of bacterial origin response to organophosphorus response to purine-containing compound response to cAMP cellular response to cAMP epithelium development mammary gland 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 astrocyte differentiation central nervous system development Bergmann glial cell differentiation positive regulation of protein metabolic process positive regulation of translation protein biosynthetic process positive regulation of macromolecule biosynthetic process post-transcriptional regulation of gene expression regulation of protein metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process regulation of leukocyte proliferation leukocyte proliferation macrophage proliferation positive regulation of leukocyte proliferation positive regulation of macrophage proliferation regulation of macrophage proliferation stem cell 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 positive regulation of DNA-templated transcription RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of RNA biosynthetic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription myelination axon ensheathment ensheathment of neurons response to nicotine regulation of defense response defense response positive regulation of neuroinflammatory response regulation of inflammatory response positive regulation of inflammatory response regulation of neuroinflammatory response positive regulation of defense response inflammatory response neuroinflammatory response positive regulation of cell communication modulation of chemical synaptic transmission long-term synaptic potentiation synaptic signaling regulation of biological quality regulation of synaptic plasticity trans-synaptic signaling cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling positive regulation of signaling response to cocaine response to alkaloid	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular membraneless organelle cilium plasma membrane bounded cell projection intracellular organelle ciliary basal body somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular membraneless organelle cilium plasma membrane bounded cell projection intracellular organelle ciliary basal body cell projection microtubule organizing center cytoskeleton organelle membraneless organelle microtubule cytoskeleton anchoring junction cell junction focal adhesion cell-substrate junction membrane microdomain cell periphery membrane raft plasma membrane raft membrane plasma membrane plasma membrane region caveola protein-containing complex neuron projection cytoplasm neuron projection dendrite cytoplasm dendrite dendritic tree endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system cytoplasmic vesicle late endosome vesicle pseudopodium Golgi apparatus axon mitochondrion centrosome mitotic spindle spindle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen early endosome postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization synapse asymmetric synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR003527	Mitogen-activated protein (MAP) kinase, conserved site	Conserved Site
A, B	IPR000719	Protein kinase domain	Domain
A, B	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B	IPR008349	Mitogen-activated protein (MAP) kinase, ERK1/2	Family
A, B	IPR008271	Serine/threonine-protein kinase, active site	Active Site
A, B	IPR050117	Mitogen-activated protein (MAP) kinase	Family
A, B	IPR011009	Protein kinase-like domain 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.