Summary: K cyclin, C terminal
Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.
This is the Wikipedia entry entitled "Cyclin". More...
Cyclin Edit Wikipedia article
Cyclin is a family of proteins that controls the progression of a cell through the cell cycle by activating cyclin-dependent kinase (CDK) enzymes or group of enzymes required for synthesis of cell cycle.[1]
Contents
Etymology
Cyclins were originally discovered by R. Timothy Hunt in 1982 while studying the cell cycle of sea urchins.[2][3]
In an interview for "The Life Scientific" (aired on 13/12/2011) hosted by Jim Al-Khalili, R. Timothy Hunt explained that the name "cyclin" was originally named after his hobby cycling. It was only after the naming did its importance in the cell cycle become apparent. As it was appropriate the name stuck.[4] R. Timothy Hunt: "By the way, the name cyclin, which I coined, was really a joke, it's because I liked cycling so much at the time, but they did come and go in the cell..."[4]
Function
Cyclins were originally named because their concentration varies in a cyclical fashion during the cell cycle. (Note that the cyclins are now classified according to their conserved cyclin box structure, and not all these cyclins alter in level through the cell cycle.[5]) The oscillations of the cyclins, namely fluctuations in cyclin gene expression and destruction by the ubiquitin mediated proteasome pathway, induce oscillations in Cdk activity to drive the cell cycle. A cyclin forms a complex with Cdk, which begins to activate but the complete activation requires phosphorylation, as well. Complex formation results in activation of the Cdk active site. Cyclins themselves have no enzymatic activity but have binding sites for some substrates and target the Cdks to specific subcellular locations.[5]
Cyclins, when bound with the dependent kinases, such as the p34/cdc2/cdk1 protein, form the maturation-promoting factor. MPFs activate other proteins through phosphorylation. These phosphorylated proteins, in turn, are responsible for specific events during cycle division such as microtubule formation and chromatin remodeling. Cyclins can be divided into four classes based on their behavior in the cell cycle of vertebrate somatic cells and yeast cells: G1 cyclins, G1/S cyclins, S cyclins, and M cyclins. This division is useful when talking about most cell cycles, but it is not universal as some cyclins have different functions or timing in different cell types.
G1/S Cyclins rise in late G1 and fall in early S phase. The Cdk- G1/S cyclin complex begins to induce the initial processes of DNA replication, primarily by arresting systems that prevent S phase Cdk activity in G1. The cyclins also promote other activities to progress the cell cycle, such as centrosome duplication in vertebrates or spindle pole body in yeast. The rise in presence of G1/S cyclins is paralleled by a rise in S cyclins.
G1 cyclins do not behave like the other cyclins, in that the concentrations increase gradually (with no oscillation), throughout the cell cycle based on cell growth and the external growth-regulatory signals. The presence of G cyclins coordinate cell growth with the entry to a new cell cycle.
S cyclins bind to Cdk and the complex directly induces DNA replication. The levels of S cyclins remain high, not only throughout S phase, but through G2 and early mitosis as well to promote early events in mitosis.
M cyclin concentrations rise as the cell begins to enter mitosis and the concentrations peak at metaphase. Cell changes in the cell cycle like the assembly of mitotic spindles and alignment of sister-chromatids along the spindles are induced by M cyclin- Cdk complexes. The destruction of M cyclins during metaphase and anaphase, after the Spindle Assembly Checkpoint is satisfied, causes the exit of mitosis and cytokinesis.[6] Expression of cyclins detected immunocytochemically in individual cells in relation to cellular DNA content (cell cycle phase),[7] or in relation to initiation and termination of DNA replication during S-phase, can be measured by flow cytometry.[8].
Kaposi sarcoma herpesvirus (KSHV) encodes a D-type cyclin (ORF72) that binds CDK6 and is likely to contribute to KSHV-related cancers[9].
Domain structure
Cyclins are generally very different from each other in primary structure, or amino acid sequence. However, all members of the cyclin family are similar in 100 amino acids that make up the cyclin box. Cyclins contain two domains of a similar all-α fold, the first located at the N-terminus and the second at the C-terminus. All cyclins are believed to contain a similar tertiary structure of two compact domains of 5 α helices. The first of which is the conserved cyclin box, outside of which cyclins are divergent. For example, the amino-terminal regions of S and M cyclins contain short destruction-box motifs that target these proteins for proteolysis in mitosis.
Types
There are several different cyclins that are active in different parts of the cell cycle and that cause the Cdk to phosphorylate different substrates. There are also several "orphan" cyclins for which no Cdk partner has been identified. For example, cyclin F is an orphan cyclin that is essential for G2/M transition.[12][13] A study in C. elegans revealed the specific roles of mitotic cyclins.[14][15] Notably, recent studies have shown that cyclin A creates a cellular environment that promotes microtubule detachment from kinetochores in prometaphase to ensure efficient error correction and faithful chromosome segregation. Cells must separate their chromosomes precisely, an event that relies on the bi-oriented attachment of chromosomes to spindle microtubules through specialized structures called kinetochores. In the early phases of division, there are numerous errors in how kinetochores bind to spindle microtubules. The unstable attachments promote the correction of errors by causing a constant detachment, realignment and reattachment of microtubules from kinetochores in the cells as they try to find the correct attachment. Protein cyclin A governs this process by keeping the process going until the errors are eliminated. In normal cells, persistent cyclin A expression prevents the stabilization of microtubules bound to kinetochores even in cells with aligned chromosomes. As levels of cyclin A decline, microtubule attachments become stable, allowing the chromosomes to be divided correctly as cell division proceeds. In contrast, in cyclin A-deficient cells, microtubule attachments are prematurely stabilized. Consequently, these cells may fail to correct errors, leading to higher rates of chromosome mis-segregation.[16]
Main groups
There are two main groups of cyclins:
- G1/S cyclins – essential for the control of the cell cycle at the G1/S transition,
- G2/M cyclins – essential for the control of the cell cycle at the G2/M transition (mitosis). G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase).
Subtypes
The specific cyclin subtypes along with their corresponding CDK (in brackets) are:
| Species | G1 | G1/S | S | M |
|---|---|---|---|---|
| S. cerevisiae | Cln3 (Cdk1) | Cln 1,2 (Cdk1) | Clb 5,6 (Cdk1) | Clb 1,2,3,4 (Cdk 1) |
| S. pombe | Puc1? (Cdc2) | Puc1, Cig1? (Cdc2) | Cig2, Cig1? (Cdc2) | Cdc13 (Cdc2) |
| D. melanogaster | cyclin D (Cdk4) | cyclin E (Cdk2) | cyclin E, A (Cdk2,1) | cyclin A, B, B3 (Cdk1) |
| X. laevis | either not known or not present | cyclin E (Cdk2) | cyclin E, A (Cdk2,1) | cyclin A, B, B3 (Cdk1) |
| H. sapiens | cyclin D 1,2,3 (Cdk4, Cdk6) | cyclin E (Cdk2) | cyclin A (Cdk2, Cdk1) | cyclin B (Cdk1) |
| family | members |
|---|---|
| A | CCNA1, CCNA2 |
| B | CCNB1, CCNB2, CCNB3 |
| C | CCNC |
| D | CCND1, CCND2, CCND3 |
| E | CCNE1, CCNE2 |
| F | CCNF |
| G | CCNG1, CCNG2 |
| H | CCNH |
| I | CCNI, CCNI2 |
| J | CCNJ, CCNJL |
| K | CCNK |
| L | CCNL1, CCNL2 |
| O | CCNO |
| T | CCNT1, CCNT2 |
| Y | CCNY, CCNYL1, CCNYL2, CCNYL3 |
Other proteins containing this domain
In addition, the following human protein contains a cyclin domain:
History
Leland H. Hartwell, R. Timothy Hunt, and Paul M. Nurse won the 2001 Nobel Prize in Physiology or Medicine for their discovery of cyclin and cyclin-dependent kinase.[17]
References
- ^ Galderisi U, Jori FP, Giordano A (August 2003). "Cell cycle regulation and neural differentiation". Oncogene. 22 (33): 5208–19. doi:10.1038/sj.onc.1206558. PMID 12910258.
- ^ Evans T, Rosenthal ET, Youngblom J, Distel D, Hunt T (June 1983). "Cyclin: a protein specified by maternal mRNA in sea urchin eggs that is destroyed at each cleavage division". Cell. 33 (2): 389–96. doi:10.1016/0092-8674(83)90420-8. PMID 6134587.
- ^ "Tim Hunt - Biographical". NobelPrize.org.
- ^ a b "The Life Scientific". BBC Radio 4. BBC. Retrieved 13 December 2011.
- ^ a b Morgan D (2006). The cell cycle: principles of control. Oxford: Oxford University Press. ISBN 978-0-19-920610-0.
- ^ Clute P, Pines J (June 1999). "Temporal and spatial control of cyclin B1 destruction in metaphase". Nature Cell Biology. 1 (2): 82–7. doi:10.1038/10049. PMID 10559878.
- ^ Darzynkiewicz Z, Gong J, Juan G, Ardelt B, Traganos F (September 1996). "Cytometry of cyclin proteins". Cytometry. 25 (1): 1–13. doi:10.1002/(SICI)1097-0320(19960901)25:1<1::AID-CYTO1>3.0.CO;2-N. PMID 8875049.
- ^ Darzynkiewicz Z, Zhao H, Zhang S, Lee MY, Lee EY, Zhang Z (May 2015). "Initiation and termination of DNA replication during S phase in relation to cyclins D1, E and A, p21WAF1, Cdt1 and the p12 subunit of DNA polymerase δ revealed in individual cells by cytometry". Oncotarget. 6 (14): 11735–50. doi:10.18632/oncotarget.4149. PMC 4494901. PMID 26059433.
- ^ Chang Y, Moore PS, Talbot SJ, Boshoff CH, Zarkowska T, Godden-Kent, Paterson H, Weiss RA, Mittnacht S (August 1996). "Cyclin encoded by KS herpesvirus". Nature. 382 (6590): 410. doi:10.1038/382410a0. PMID 8684480.
- ^ Brown NR, Noble ME, Endicott JA, Garman EF, Wakatsuki S, Mitchell E, Rasmussen B, Hunt T, Johnson LN (November 1995). "The crystal structure of cyclin A". Structure. 3 (11): 1235–47. doi:10.1016/S0969-2126(01)00259-3. PMID 8591034.
- ^ Davies TG, Tunnah P, Meijer L, Marko D, Eisenbrand G, Endicott JA, Noble ME (May 2001). "Inhibitor binding to active and inactive CDK2: the crystal structure of CDK2-cyclin A/indirubin-5-sulphonate". Structure. 9 (5): 389–97. doi:10.1016/S0969-2126(01)00598-6. PMID 11377199.
- ^ Fung TK, Poon RY (June 2005). "A roller coaster ride with the mitotic cyclins". Seminars in Cell & Developmental Biology. 16 (3): 335–42. doi:10.1016/j.semcdb.2005.02.014. PMID 15840442.
- ^ Karp G (2007). Cell and Molecular Biology: Concepts and Experiments. New York: Wiley. pp. 148, 165–170, and 624–664. ISBN 0-470-04217-6.
- ^ van der Voet M, Lorson MA, Srinivasan DG, Bennett KL, van den Heuvel S (December 2009). "C. elegans mitotic cyclins have distinct as well as overlapping functions in chromosome segregation". Cell Cycle. 8 (24): 4091–102. doi:10.4161/cc.8.24.10171. PMC 3614003. PMID 19829076.
- ^ Rahman MM, Kipreos ET (January 2010). "The specific roles of mitotic cyclins revealed". Cell Cycle. 9 (1): 22–3. doi:10.4161/cc.9.1.10735. PMID 20016257.
- ^ Baumann K (November 2013). "Cell cycle: Cyclin A corrections". Nature Reviews. Molecular Cell Biology. 14 (11): 692. doi:10.1038/nrm3680. PMID 24064541.
- ^ "The Nobel Prize in Physiology or Medicine 2001". The Nobel Foundation. Retrieved 2009-03-15.
Further reading
- Krieger M, Scott MP, Matsudaira PT, Lodish HF, Darnell JE, Zipursky L, Kaiser C, Berk A (2004). Molecular cell biology (Fifth ed.). New York: W.H. Freeman and CO. ISBN 0-7167-4366-3.
External links
- Eukaryotic Linear Motif resource motif class LIG_CYCLIN_1
This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.
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.
K cyclin, C terminal Provide feedback
Members of this family adopt a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity [1].
Literature references
-
Jeffrey PD, Tong L, Pavletich NP; , Genes Dev. 2000;14:3115-3125.: Structural basis of inhibition of CDK-cyclin complexes by INK4 inhibitors. PUBMED:11124804 EPMC:11124804
Internal database links
| SCOOP: | Cyclin_C |
External database links
| SCOP: | 1g3n |
This tab holds annotation information from the InterPro database.
InterPro entry IPR015164
Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [ PUBMED:12910258 ], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E.
Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus [ PUBMED:11056549 ].
This domain adopts a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity [ PUBMED:11124804 ].
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
Loading domain graphics...
Pfam Clan
This family is a member of clan Cyclin (CL0065), which has the following description:
This Clan contains cyclins, Transcription factor IIB (TFIIB), and the Retinoblastoma tumour suppressor proteins. These were predicted to be related by sequence [1].
The clan contains the following 12 members:
CDK5_activator Cyclin Cyclin_C Cyclin_C_2 Cyclin_N DUF3452 Herp-Cyclin K-cyclin_vir_C RB_A RB_B TFIIB TFIIB_C_1Alignments
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...
View options
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 (2) |
Full (6) |
Representative proteomes | UniProt (19) |
||||
|---|---|---|---|---|---|---|---|
| RP15 (5) |
RP35 (5) |
RP55 (5) |
RP75 (5) |
||||
| Jalview | |||||||
| HTML | |||||||
| PP/heatmap | 1 | ||||||
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
not generated,
— not available.
Format an alignment
Download options
We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.
| Seed (2) |
Full (6) |
Representative proteomes | UniProt (19) |
||||
|---|---|---|---|---|---|---|---|
| RP15 (5) |
RP35 (5) |
RP55 (5) |
RP75 (5) |
||||
| Raw Stockholm | |||||||
| Gzipped | |||||||
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
| Seed source: | pdb_1g3n |
| Previous IDs: | none |
| Type: | Domain |
| Sequence Ontology: | SO:0000417 |
| Author: |
Sammut SJ 
|
| Number in seed: | 2 |
| Number in full: | 6 |
| Average length of the domain: | 102.50 aa |
| Average identity of full alignment: | 49 % |
| Average coverage of the sequence by the domain: | 39.91 % |
HMM information
| HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
|
||||||||||||
| Model details: |
|
||||||||||||
| Model length: | 106 | ||||||||||||
| Family (HMM) version: | 12 | ||||||||||||
| Download: | download the raw HMM for this family |
Species distribution
Sunburst controls
HideWeight segments by...
Change the size of the sunburst
Colour assignments
Archea
|
Eukaryota
|
Bacteria
|
Other sequences
|
Viruses
|
Unclassified
|
Viroids
|
Unclassified sequence
|
Selections
Align selected sequences to HMM
Generate a FASTA-format file
Clear selection
This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...
Tree controls
HideThe tree shows the occurrence of this domain across different species. More...
Loading...
Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.
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 K-cyclin_vir_C domain has been found. There are 2 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.
Loading structure mapping...
