4KBA | pdb_00004kba

CK1d in complex with 9-[3-(4-fluorophenyl)-1-methyl-1H-pyrazol-4-yl]-2,3,4,5-tetrahydropyrido[2,3-f][1,4]oxazepine 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)
A	d4kbaa_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Casein kinase-1, CK1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4kbab_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Casein kinase-1, CK1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d4kbad_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Casein kinase-1, CK1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4kbac_	Alpha and beta proteins (a+b)	Protein kinase-like (PK-like)	Protein kinase-like (PK-like)	Protein kinases, catalytic subunit	Casein kinase-1, CK1	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)	8080849	3000066	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8080849	3000066	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Protein kinase-like (PK-like)	8080849	3000066	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Protein kinase-like (PK-like)	8080849	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	Pkinase_Tyr	e4kbaA1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)
B	Pkinase_Tyr	e4kbaB1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)
D	Pkinase_Tyr	e4kbaD1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)
C	Pkinase_Tyr	e4kbaC1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)

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)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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	Casein kinase I isoform delta	protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups histone H2AS121 kinase activity histone modifying activity histone H2A kinase activity catalytic activity histone kinase activity AMP-activated protein kinase activity DNA-dependent protein kinase activity protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups histone H2AS121 kinase activity histone modifying activity histone H2A kinase activity catalytic activity histone kinase activity AMP-activated protein kinase activity DNA-dependent protein kinase activity histone H3T45 kinase activity histone H3 kinase activity eukaryotic translation initiation factor 2alpha kinase activity tau-protein 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 cell adhesion molecule binding cadherin binding protein binding histone H3T6 kinase activity histone H3T3 kinase activity histone H2BS14 kinase activity histone H2B kinase activity histone H3S57 kinase activity Rho-dependent protein serine/threonine kinase activity histone H2AT120 kinase activity histone H2AXS139 kinase activity histone H2AX kinase activity histone H4S1 kinase activity histone H4 kinase activity protein serine kinase activity histone H3T11 kinase activity histone H3S28 kinase activity 3-phosphoinositide-dependent protein kinase activity histone H2BS36 kinase activity histone H2AS1 kinase activity ribosomal protein S6 kinase activity histone H3S10 kinase activity	cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus positive regulation of non-canonical Wnt signaling pathway positive regulation of Wnt signaling pathway non-canonical Wnt signaling pathway signal transduction cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus positive regulation of non-canonical Wnt signaling pathway positive regulation of Wnt signaling pathway non-canonical Wnt signaling pathway signal transduction Wnt signaling pathway positive regulation of cellular process regulation of biological process regulation of signaling regulation of Wnt signaling pathway cell surface receptor signaling pathway biological regulation regulation of non-canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication cellular process positive regulation of signaling establishment of organelle localization vesicle budding from membrane cellular localization transport vesicle targeting, to, from or within Golgi vesicle-mediated transport vesicle targeting cellular component organization vesicle organization cellular component biogenesis localization cellular component assembly organelle localization establishment of localization in cell protein-containing complex assembly vesicle coating cellular component organization or biogenesis vesicle targeting, rough ER to cis-Golgi membrane organization vesicle localization protein-containing complex organization establishment of vesicle localization intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport establishment of localization organelle organization COPII-coated vesicle budding COPII vesicle coating Golgi vesicle transport positive regulation of proteasomal protein catabolic process catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process protein metabolic process regulation of protein metabolic process primary metabolic process proteasomal protein catabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process metabolic process ubiquitin-dependent protein catabolic process macromolecule metabolic process regulation of metabolic process regulation of protein catabolic process cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor regulation of biosynthetic process rhythmic process circadian regulation of gene expression circadian rhythm gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process protein phosphorylation phosphorylation macromolecule modification phosphate-containing compound metabolic process protein modification process phosphorus metabolic process protein polymerization microtubule cytoskeleton organization microtubule polymerization microtubule polymerization or depolymerization microtubule nucleation microtubule-based process supramolecular fiber organization cytoskeleton organization protein localization protein localization to cilium protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to microtubule cytoskeleton protein localization to microtubule organizing center protein localization to cytoskeleton protein localization to centrosome regulation of circadian rhythm import into cell endocytosis organelle assembly membraneless organelle assembly spindle assembly cell cycle chromosome segregation spindle organization cell cycle process plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cilium assembly non-motile cilium assembly cilium organization cell projection assembly protein localization to Golgi apparatus developmental process multicellular organismal process head development dopaminergic neuron differentiation cellular developmental process animal organ development brain development nervous system development generation of neurons multicellular organism development neurogenesis central nervous system neuron differentiation central nervous system development neuron differentiation cell differentiation midbrain development anatomical structure development midbrain dopaminergic neuron differentiation system development regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of canonical Wnt signaling pathway Golgi organization endomembrane system organization	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol membrane-bounded organelle Golgi apparatus intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol membrane-bounded organelle Golgi apparatus intracellular membrane-bounded organelle endomembrane system membrane bounding membrane of organelle endoplasmic reticulum-Golgi intermediate compartment membrane endoplasmic reticulum-Golgi intermediate compartment organelle membrane perinuclear region of cytoplasm spindle microtubule cytoskeleton cilium plasma membrane bounded cell projection ciliary basal body cell projection microtubule organizing center centrosome cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen polymeric cytoskeletal fiber spindle microtubule supramolecular fiber microtubule supramolecular polymer supramolecular complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000719	Protein kinase domain	Domain
A, B, C, D	IPR050235	Casein Kinase 1 Ser/Thr Protein Kinase	Family
A, B, C, D	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B, C, D	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: P48730	advanced sleep phase syndrome 2 Advanced Sleep-Phase Syndrome, Familial renal cell carcinoma atypical teratoid rhabdoid tumor cutaneous lupus erythematosus invasive ductal breast carcinoma major depressive disorder malignant mesothelioma osteosarcoma plasma cell myeloma schizophrenia bipolar disorder gastrointestinal stromal tumor Kleine-Levin syndrome malignant ependymoma advanced sleep phase syndrome 2 Advanced Sleep-Phase Syndrome, Familial renal cell carcinoma atypical teratoid rhabdoid tumor cutaneous lupus erythematosus invasive ductal breast carcinoma major depressive disorder malignant mesothelioma osteosarcoma plasma cell myeloma schizophrenia bipolar disorder gastrointestinal stromal tumor Kleine-Levin syndrome malignant ependymoma ovarian cancer psoriasis tuberculosis astrocytic tumor breast carcinoma glioblastoma lung cancer malignant glioma oligodendroglioma

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.