6N46

Crystal structure of the cryptic polo box domain of a human activated Plk4

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	POLO_box_Plk4_1	e6n46A1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
A	POLO_box_Plk4_2	e6n46A2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
C	POLO_box_Plk4_1	e6n46C1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
C	POLO_box_Plk4_2	e6n46C2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
D	POLO_box_Plk4_1	e6n46D2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
D	POLO_box_Plk4_2	e6n46D1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
E	POLO_box_Plk4_1	e6n46E1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
E	POLO_box_Plk4_2	e6n46E2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
G	POLO_box_Plk4_1	e6n46G2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
G	POLO_box_Plk4_2	e6n46G1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
H	POLO_box_Plk4_1	e6n46H2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
H	POLO_box_Plk4_2	e6n46H1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
B	POLO_box_Plk4_1	e6n46B2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
B	POLO_box_Plk4_2	e6n46B1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)
F	POLO_box_Plk4_1	e6n46F2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_1	ECOD (1.6)
F	POLO_box_Plk4_2	e6n46F1	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box_Plk4_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
A	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
C	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
C	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
D	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
D	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
E	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
E	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
G	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
G	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
H	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
H	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
B	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
B	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
F	3.30.1120.120	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)
F	3.30.1120.130	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF18409	Polo-like Kinase 4 Polo Box 2 (Plk4_PB2)	Polo-like Kinase 4 Polo Box 2	This Polo box (PB) domain is found in Polo-like kinase 4 (Plk4) present in Drosophila melanogaster. Plk4 is a conserved component in the duplication pathway of centrioles which is needed to prevent chromosomal instability. Plk4 localizes to centriole ...	This Polo box (PB) domain is found in Polo-like kinase 4 (Plk4) present in Drosophila melanogaster. Plk4 is a conserved component in the duplication pathway of centrioles which is needed to prevent chromosomal instability. Plk4 localizes to centrioles in M/G1. Structural analysis reveals two tandem, homodimerized polo boxes, PB1-PB2, that form a winged architecture. This domain is PB2, together with PB1 Pfam:PF18190 , they are required for binding the centriolar protein Asterless (Asl) as well as robust centriole targeting. In other words, PB1-PB2 cassette collectively binds Asl and affords robust centriole localization, optimally positioning the kinase domain for trans-autophosphorylation [1].	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	PF18190	Polo-like Kinase 4 Polo Box 1 (Plk4_PB1)	Polo-like Kinase 4 Polo Box 1	This domain is found in Polo-like kinase 4 (Plk4) present in Drosophila melanogaster. Plk4 is a conserved component in the duplication pathway of centrioles which is needed to prevent chromosomal instability. The domain is Polo Box 1 (PB1) and has a ...	This domain is found in Polo-like kinase 4 (Plk4) present in Drosophila melanogaster. Plk4 is a conserved component in the duplication pathway of centrioles which is needed to prevent chromosomal instability. The domain is Polo Box 1 (PB1) and has a pseudo-symmetric dimerization interface across PB1-PB1 [1].	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, G, H	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 organic cyclic compound 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 non-membrane-bounded organelle assembly microtubule cytoskeleton organization 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 protein phosphorylation organonitrogen compound metabolic process phosphorylation cellular metabolic process primary metabolic process organic substance 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 membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle 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, C, D, E A, B, C, D, E, F, G, H	IPR017441	Protein kinase, ATP binding site	Binding Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR008266	Tyrosine-protein kinase, active site	Active Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000719	Protein kinase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033696	Plk4, C-terminal polo-box domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000959	POLO box domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033698	Plk4, second cryptic polo-box domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR046437	Serine/threonine-protein kinase, first cryptic polo-box domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR047108	Plk4-like, second cryptic polo-box domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033699	Plk4, first cryptic polo-box domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F, G, H	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 National Science Foundation (DBI-1832184), 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 R01GM133198.