Summary: Myogenic determination factor 5
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Myf5 domain | |||||||||
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Identifiers | |||||||||
Symbol | Myf5 | ||||||||
Pfam | PF12232 | ||||||||
InterPro | IPR022032 | ||||||||
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Basic domain | |||||||||
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![]() crystal structure of myod bhlh domain bound to dna: perspectives on dna recognition and implications for transcriptional activation
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Identifiers | |||||||||
Symbol | Basic | ||||||||
Pfam | PF01586 | ||||||||
InterPro | IPR002546 | ||||||||
PROSITE | PDOC00038 | ||||||||
SCOP | 1mdy | ||||||||
SUPERFAMILY | 1mdy | ||||||||
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In molecular biology, the myogenic determination factor 5 proteins are a family of proteins found in eukaryotes. This family includes the Myf5 protein, which is responsible for directing cells to the skeletal myocyte lineage during development. Myf5 is likely to act in a similar way to the other MRF4 proteins such as MyoD which perform the same function. These are histone acetyltransferases and histone deacetylases which activate and repress genes involved in the myocyte lineage.
Myogenic determination factor 5 proteins contain three conserved protein domains. A C-terminal Myf5 domain, a central basic helix-loop-helix (bHLH) domain and an N-terminal basic domain. The bHLH region mediates specific DNA binding.[1] With 12 residues of the basic domain involved in DNA binding.[2] The basic domain forms an extended alpha helix in the structure.
References
- ^ Hamamori Y, Wu HY, Sartorelli V, Kedes L (November 1997). "The basic domain of myogenic basic helix-loop-helix (bHLH) proteins is the novel target for direct inhibition by another bHLH protein, Twist". Mol. Cell. Biol. 17 (11): 6563–73. PMC 232510
. PMID 9343420. doi:10.1128/mcb.17.11.6563.
- ^ Molkentin JD, Olson EN (September 1996). "Combinatorial control of muscle development by basic helix-loop-helix and MADS-box transcription factors". Proc. Natl. Acad. Sci. U.S.A. 93 (18): 9366–73. PMC 38433
. PMID 8790335. doi:10.1073/pnas.93.18.9366.
This article incorporates text from the public domain Pfam and InterPro IPR022032
This article incorporates text from the public domain Pfam and InterPro IPR002546
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.
Myogenic determination factor 5 Provide feedback
This domain family is found in eukaryotes, and is approximately 70 amino acids in length. The family is found in association with PF00010 PF01586. There is a conserved CSD sequence motif. Myf5 is responsible for directing cells to the skeletal myocyte lineage during development. Myf5 is likely to act in a similar way to the other MRF4 proteins such as MyoD which perform the same function. These are histone acetyltransferases and histone deacetylases which activate and repress genes involved in the myocyte lineage.
Literature references
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Ye HQ, Chen SL, Xu JY;, Comp Biochem Physiol B Biochem Mol Biol. 2007;147:452-459.: Molecular cloning and characterization of the Myf5 gene in sea perch (Lateolabrax japonicus). PUBMED:17395511 EPMC:17395511
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McKinsey TA, Zhang CL, Olson EN;, Curr Opin Genet Dev. 2001;11:497-504.: Control of muscle development by dueling HATs and HDACs. PUBMED:11532390 EPMC:11532390
This tab holds annotation information from the InterPro database.
InterPro entry IPR022032
This domain is found in eukaryotes, is approximately 70 amino acids in length, and contains a conserved CSD sequence motif. It is found in association with , . This domain is found in Myogenic factor 5 (Myf5) and Myoblast determination protein 1 (MyoD1). Myf5 is responsible for directing cells to the skeletal myocyte lineage during development [PUBMED:17395511]. Myf5 is likely to act in a similar way to the other MRF4 proteins such as MyoD which perform the same function [PUBMED:21798092].
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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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, the UniProtKB sequence database, the NCBI sequence database, and our metagenomics 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 (26) |
Full (391) |
Representative proteomes | UniProt (707) |
NCBI (1014) |
Meta (0) |
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RP15 (26) |
RP35 (93) |
RP55 (249) |
RP75 (396) |
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Jalview | |||||||||
HTML | |||||||||
PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
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Seed (26) |
Full (391) |
Representative proteomes | UniProt (707) |
NCBI (1014) |
Meta (0) |
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RP15 (26) |
RP35 (93) |
RP55 (249) |
RP75 (396) |
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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.
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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: | PFAM-B_2654 (release 23.0) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Assefa S |
Number in seed: | 26 |
Number in full: | 391 |
Average length of the domain: | 67.20 aa |
Average identity of full alignment: | 47 % |
Average coverage of the sequence by the domain: | 24.12 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 71 | ||||||||||||
Family (HMM) version: | 9 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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