3COK | pdb_00003cok

Crystal structure of PLK4 kinase

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)
B	d3cokb1	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	d3cokb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3coka1	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)
A	d3coka2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
B	SCOP2B Superfamily	Protein kinase-like (PK-like)	8062398	3000066	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Protein kinase-like (PK-like)	8062398	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, Kinase-like	e3cokB1	A: a/b three-layered sandwiches	X: Alpha-beta plaits	H: Protease propeptides/inhibitors	T: Protease propeptides/inhibitors	F: Pkinase, Kinase-like	ECOD (v294.1)
A	PK	e3cokA1	A: a/b three-layered sandwiches	X: Alpha-beta plaits	H: Protease propeptides/inhibitors	T: Protease propeptides/inhibitors	F: PK	ECOD (v294.1)

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	Serine/threonine-protein kinase PLK4	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 identical protein binding protein binding	developmental process cell differentiation involved in embryonic placenta development multicellular organismal process cellular developmental process placenta development reproductive process chordate embryonic development animal organ development developmental process involved in reproduction embryo development in utero embryonic development trophoblast giant cell differentiation multicellular organism development embryonic placenta development embryo development ending in birth or egg hatching developmental process cell differentiation involved in embryonic placenta development multicellular organismal process cellular developmental process placenta development reproductive process chordate embryonic development animal organ development developmental process involved in reproduction embryo development in utero embryonic development trophoblast giant cell differentiation multicellular organism development embryonic placenta development embryo development ending in birth or egg hatching cell differentiation anatomical structure development cellular process embryonic organ development centriole assembly microtubule organizing center organization organelle assembly microtubule cytoskeleton organization membraneless organelle assembly cellular component organization cellular component biogenesis centrosome duplication organelle organization cellular component assembly centrosome cycle microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization centriole replication cell cycle process plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cilium assembly cilium organization cell projection assembly epithelial cell differentiation epithelium development tissue development multi-ciliated epithelial cell differentiation de novo centriole assembly involved in multi-ciliated epithelial cell differentiation de novo centriole assembly columnar/cuboidal epithelial cell differentiation protein phosphorylation 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 organelle organization regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization positive regulation of biological process positive regulation of cell cycle process regulation of cell cycle positive regulation of cellular process regulation of centriole replication regulation of biological process regulation of cell cycle process positive regulation of cellular component biogenesis regulation of centrosome cycle positive regulation of cytoskeleton organization biological regulation regulation of microtubule-based process regulation of cellular component biogenesis regulation of organelle organization positive regulation of cell cycle regulation of organelle assembly regulation of centrosome duplication positive regulation of centriole replication positive regulation of organelle assembly	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen centrosome microtubule organizing center cytoskeleton microtubule cytoskeleton centriole cytoplasm cytosol XY body sex chromosome chromosome cell division site cell periphery cleavage furrow membrane plasma membrane plasma membrane region protein-containing complex procentriole replication complex procentriole deuterosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B	IPR008266	Tyrosine-protein kinase, active site	Active Site
A, B	IPR000719	Protein kinase domain	Domain
A, B	IPR033696	Plk4, C-terminal polo-box domain	Domain
A, B	IPR000959	POLO box domain	Domain
A, B	IPR033698	Plk4, second cryptic polo-box domain	Domain
A, B	IPR046437	Serine/threonine-protein kinase, first cryptic polo-box domain superfamily	Homologous Superfamily
A, B	IPR047108	Plk4-like, second cryptic polo-box domain superfamily	Homologous Superfamily
A, B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B	IPR033699	Plk4, first cryptic polo-box domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O00444	Seckel syndrome microcephaly Eye Diseases, Hereditary microcephaly and chorioretinopathy 2 microlissencephaly ovarian cancer primitive neuroectodermal tumor acute myeloid leukemia breast cancer invasive ductal breast carcinoma malignant colon neoplasm malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm renal cell carcinoma Seckel syndrome microcephaly Eye Diseases, Hereditary microcephaly and chorioretinopathy 2 microlissencephaly ovarian cancer primitive neuroectodermal tumor acute myeloid leukemia breast cancer invasive ductal breast carcinoma malignant colon neoplasm malignant mesothelioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm renal cell carcinoma thrombocytopenia due to immune destruction adrenal cortex carcinoma ductal breast carcinoma in situ glioblastoma large cell medulloblastoma malignant ependymoma medulloblastoma osteosarcoma atypical teratoid rhabdoid tumor intellectual disability lung cancer malignant glioma

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.