3WI6 | pdb_00003wi6

Crystal structure of MAPKAP Kinase-2 (MK2) in complex with non-selective inhibitor

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)
F	d3wi6f_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d3wi6e_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d3wi6d_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3wi6c_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3wi6b_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3wi6a_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	MAP kinase activated protein kinase 2, mapkap2	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)
F	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	3000066	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	3000066	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	3000066	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	3000066	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	3000066	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Protein kinase-like (PK-like)	8043734	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)
F	Ribosomal_L28	e3wi6F1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)
E	Ribosomal_L28	e3wi6E1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)
D	Ribosomal_L28	e3wi6D1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)
C	Ribosomal_L28	e3wi6C1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)
B	Ribosomal_L28	e3wi6B1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)
A	Ribosomal_L28	e3wi6A1	A: alpha bundles	X: dsRBD-like	H: Peptidyl-tRNA hydrolase domain-like	T: Peptidyl-tRNA hydrolase domain-like	F: Ribosomal_L28	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
F	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
E	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
E	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
D	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
D	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
C	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (4.3.0)
C	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (4.3.0)
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, C, D, E A, B, C, D, E, F	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, C, D, E A, B, C, D, E, F	MAP kinase-activated protein kinase 2	protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity calcium/calmodulin-dependent protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups calcium-dependent protein serine/threonine kinase activity protein serine kinase activity binding adenyl ribonucleotide binding nucleotide binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity calcium/calmodulin-dependent protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups calcium-dependent protein serine/threonine kinase activity protein serine kinase activity 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 binding calmodulin binding kinase binding enzyme binding protein kinase binding mitogen-activated protein kinase binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of biological process regulation of cellular process signaling biological regulation p38MAPK cascade intracellular signal transduction cell communication intracellular signaling cassette cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of biological process regulation of cellular process signaling biological regulation p38MAPK cascade intracellular signal transduction cell communication intracellular signaling cassette MAPK cascade signal transduction catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of mRNA catabolic process negative regulation of cellular process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of mRNA stability regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of RNA stability nucleic acid catabolic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of mRNA metabolic process regulation of metabolic process developmental process ear development sensory organ development inner ear development animal organ development anatomical structure development multicellular organismal process regulation of tumor necrosis factor production tumor necrosis factor superfamily cytokine production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production cytokine production regulation of cytokine production regulation of multicellular organismal process response to peptide response to chemical response to cytokine localization import into cell macropinocytosis transport pinocytosis endocytosis establishment of localization vesicle-mediated transport regulation of immune effector process positive regulation of biological 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 regulation of immune system process positive regulation of immune effector process positive regulation of macromolecule metabolic process myeloid leukocyte cytokine production cytokine production involved in immune response positive regulation of immune system process positive regulation of cellular process production of molecular mediator of immune response regulation of cytokine production involved in immune response immune response immune effector process regulation of macrophage cytokine production positive regulation of gene expression immune system process 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 production of molecular mediator of immune response positive regulation of cytokine production positive regulation of macrophage cytokine production macrophage cytokine production defense response inflammatory response interleukin-6 production regulation of interleukin-6 production positive regulation of tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production negative regulation of nucleobase-containing compound metabolic process mRNA stabilization negative regulation of RNA metabolic process negative regulation of mRNA metabolic process 3'-UTR-mediated mRNA stabilization negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process RNA stabilization regulation of signal transduction cytokine-mediated signaling pathway cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus regulation of signaling regulation of tumor necrosis factor-mediated signaling pathway cell surface receptor signaling pathway regulation of cytokine-mediated signaling pathway regulation of response to cytokine stimulus regulation of response to stimulus regulation of cell communication response to tumor necrosis factor cell surface receptor protein tyrosine kinase signaling pathway vascular endothelial growth factor receptor signaling pathway enzyme-linked receptor protein signaling pathway cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to vascular endothelial growth factor stimulus response to growth factor icosanoid metabolic process leukotriene metabolic process oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process organic acid metabolic process biological process involved in interspecies interaction between organisms response to lipid response to other organism response to oxygen-containing compound response to external stimulus response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus pattern recognition receptor signaling pathway regulation of response to external stimulus toll-like receptor signaling pathway 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 innate immune response innate immune response-activating signaling pathway positive regulation of innate immune response regulation of innate immune response defense response to symbiont defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cellular response to heat regulation of cellular response to heat regulation of cellular response to stress response to heat response to temperature stimulus response to abiotic stimulus	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen cilium plasma membrane bounded cell projection ciliary basal body cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B, C, D, E A, B, C, D, E, F	IPR000719	Protein kinase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR027442	MAP kinase activated protein kinase, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: P49137	ulcerative colitis atypical teratoid rhabdoid tumor chronic obstructive pulmonary disease glioblastoma large cell medulloblastoma medulloblastoma pituitary cancer rheumatoid arthritis Behcet disease Crohn disease inflammatory bowel disease malignant ependymoma osteosarcoma primitive neuroectodermal tumor systemic lupus erythematosus ulcerative colitis atypical teratoid rhabdoid tumor chronic obstructive pulmonary disease glioblastoma large cell medulloblastoma medulloblastoma pituitary cancer rheumatoid arthritis Behcet disease Crohn disease inflammatory bowel disease malignant ependymoma osteosarcoma primitive neuroectodermal tumor systemic lupus erythematosus breast carcinoma dermatomyositis invasive ductal breast carcinoma malignant glioma pilocytic astrocytoma 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.