5AX9 | pdb_00005ax9

Crystal structure of the kinase domain of human TRAF2 and NCK-interacting protein kinase in complex with compund 9

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)
A	d5ax9a_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d5ax9b_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d5ax9c_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	automated matches	automated matches	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)
A	SCOP2B Superfamily	Protein kinase-like (PK-like)	8069157	3000066	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8069157	3000066	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein kinase-like (PK-like)	8069157	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)
A		e5ax9A1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: zf-C3HC4_2	F:	ECOD (20:10:01)
B		e5ax9B1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: zf-C3HC4_2	F:	ECOD (20:10:01)
C		e5ax9C1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: zf-C3HC4_2	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	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	TRAF2 and NCK-interacting protein kinase	catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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	regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization cell projection organization positive regulation of microvillus assembly positive regulation of biological process plasma membrane bounded cell projection assembly microvillus organization cellular component biogenesis cellular component organization regulation of microvillus assembly cellular component assembly positive regulation of cell projection organization cellular component organization or biogenesis regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization cell projection organization positive regulation of microvillus assembly positive regulation of biological process plasma membrane bounded cell projection assembly microvillus organization cellular component biogenesis cellular component organization regulation of microvillus assembly cellular component assembly positive regulation of cell projection organization cellular component organization or biogenesis positive regulation of cellular process regulation of biological process plasma membrane bounded cell projection organization positive regulation of cellular component biogenesis regulation of cell projection organization regulation of cell projection assembly biological regulation regulation of cellular component biogenesis regulation of plasma membrane bounded cell projection assembly regulation of microvillus organization microvillus assembly cellular process cell projection assembly regulation of plasma membrane bounded cell projection organization positive regulation of plasma membrane bounded cell projection assembly cellular response to stimulus regulation of signaling response to stimulus signaling regulation of signal transduction regulation of MAPK cascade intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette MAPK cascade regulation of cell communication signal transduction organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton organization multicellular organismal process cellular developmental process plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process nervous system development generation of neurons anatomical structure morphogenesis neuron development protein phosphorylation protein autophosphorylation phosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of JNK cascade JNK cascade positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction positive regulation of signaling regulation of neuron projection development regulation of developmental process dendrite development regulation of dendrite morphogenesis regulation of anatomical structure morphogenesis dendrite morphogenesis cell morphogenesis involved in neuron differentiation regulation of dendrite development cell surface receptor signaling pathway Wnt signaling pathway	cell periphery cellular anatomical structure apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cell periphery cellular anatomical structure apical part of cell membrane plasma membrane plasma membrane region apical plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol presynapse synapse cell junction nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen glutamatergic synapse cytoskeleton membraneless organelle intracellular membraneless organelle endosome intracellular vesicle recycling endosome endomembrane system cytoplasmic vesicle postsynaptic density, intracellular component postsynaptic specialization postsynaptic specialization, intracellular component postsynaptic density postsynapse neuron to neuron synapse asymmetric synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B, C	IPR001180	Citron homology (CNH) domain	Domain
A, B, C	IPR000719	Protein kinase domain	Domain
A, B, C	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B, C	IPR051700	STE20 Ser/Thr Protein Kinase	Family
A, B, C	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: Q9UKE5	intellectual disability, autosomal recessive 54 juvenile idiopathic arthritis Arsenic Poisoning intellectual disability lung cancer medulloblastoma oligodendroglioma adrenal cortex carcinoma pancreatic intraductal papillary-mucinous neoplasm Pick disease skin disease gastrointestinal stromal tumor invasive ductal breast carcinoma malignant mesothelioma osteosarcoma intellectual disability, autosomal recessive 54 juvenile idiopathic arthritis Arsenic Poisoning intellectual disability lung cancer medulloblastoma oligodendroglioma adrenal cortex carcinoma pancreatic intraductal papillary-mucinous neoplasm Pick disease skin disease gastrointestinal stromal tumor invasive ductal breast carcinoma malignant mesothelioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia renal cell carcinoma subependymal giant cell astrocytoma ductal breast carcinoma in situ head and neck cancer malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma atypical teratoid rhabdoid tumor schizophrenia cystic fibrosis ulcerative colitis esophageal adenocarcinoma idiopathic scoliosis interstitial cystitis

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.