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21  structures 393  species 0  interactions 627  sequences 15  architectures

Family: Plk4_PB2 (PF18409)

Summary: Polo-like Kinase 4 Polo Box 2

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This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Polo-like Kinase 4 Polo Box 2 Provide feedback

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 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].

Literature references

  1. Slevin LK, Nye J, Pinkerton DC, Buster DW, Rogers GC, Slep KC;, Structure. 2012;20:1905-1917.: The structure of the plk4 cryptic polo box reveals two tandem polo boxes required for centriole duplication. PUBMED:23000383 EPMC:23000383

  2. Shimanovskaya E, Viscardi V, Lesigang J, Lettman MM, Qiao R, Svergun DI, Round A, Oegema K, Dong G;, Structure. 2014;22:1090-1104.: Structure of the C. elegans ZYG-1 cryptic polo box suggests a conserved mechanism for centriolar docking of Plk4 kinases. PUBMED:24980795 EPMC:24980795

  3. Park SY, Park JE, Kim TS, Kim JH, Kwak MJ, Ku B, Tian L, Murugan RN, Ahn M, Komiya S, Hojo H, Kim NH, Kim BY, Bang JK, Erikson RL, Lee KW, Kim SJ, Oh BH, Yang W, Lee KS;, Nat Struct Mol Biol. 2014;21:696-703.: Molecular basis for unidirectional scaffold switching of human Plk4 in centriole biogenesis. PUBMED:24997597 EPMC:24997597


This tab holds annotation information from the InterPro database.

InterPro entry IPR033698

This entry represents the second (cryptic) polo-box domain of Plk4.

The polo-like Ser/Thr kinases (Plk1, Plk2/Snk, Plk3/Prk/Fnk, Plk4/Sak, and the inactive kinase Plk5) play various roles in cytokinesis and mitosis. At their C terminus, they contain a tandemly repeated polo-box domain (PBD) (in the case of Plk4, a tandem repeat of cryptic PBDs is found in the middle of the protein followed by a C-terminal single repeat), which appears to be involved in autoinhibition and in mediating the subcellular localization. The latter may be controlled via interactions between the polo-box domain and phospho-peptide motifs. The phosphopeptide binding site is formed at the interface between the two tandemly repeated PBDs. The PBDs of Plk4/Sak appear unique in participating in homodimer interactions, though it is not clear whether and how they interact with phosphopeptides [ PUBMED:14592974 , PUBMED:21654194 , PUBMED:20148280 , PUBMED:19305416 , PUBMED:17188028 , PUBMED:15838519 ].

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan Polo-box (CL0708), which has the following description:

This superfamily includes Polo domains which consist of an anti-parallel 6-stranded beta-sheet that lies across a C-terminal alpha-helix. These domains are ussually present in two copies and forms dimers that mediate protein-protein interactions [1,2,3]. Polo boxes are present in polo-like kinases involved in the control of cell cycle progression.

The clan contains the following 5 members:

Plk4_PB1 Plk4_PB2 POLO_box Polo_box_2 Polo_box_3

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(51)
Full
(627)
Representative proteomes UniProt
(1117)
RP15
(121)
RP35
(237)
RP55
(503)
RP75
(650)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(51)
Full
(627)
Representative proteomes UniProt
(1117)
RP15
(121)
RP35
(237)
RP55
(503)
RP75
(650)
Alignment:
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  Seed
(51)
Full
(627)
Representative proteomes UniProt
(1117)
RP15
(121)
RP35
(237)
RP55
(503)
RP75
(650)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: ECOD:EUF01981
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: El-Gebali S
Number in seed: 51
Number in full: 627
Average length of the domain: 107.80 aa
Average identity of full alignment: 49 %
Average coverage of the sequence by the domain: 12.27 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.9 26.9
Trusted cut-off 26.9 27.2
Noise cut-off 26.7 26.4
Model length: 109
Family (HMM) version: 4
Download: download the raw HMM for this family

Species distribution

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Plk4_PB2 domain has been found. There are 21 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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