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0  structures 250  species 0  interactions 265  sequences 4  architectures

Family: MATalpha_HMGbox (PF04769)

Summary: Mating-type protein MAT alpha 1 HMG-box

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Mating-type protein MAT alpha 1 HMG-box Provide feedback

This family includes Saccharomyces cerevisiae mating type protein alpha 1 (P01365). Mat alpha 1 is a transcription activator which activates mating-type alpha-specific genes. MAT alpha 1 and MCM 1 bind cooperatively to PQ elements upstream of alpha-specific genes [1]. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (PF04648) response pathway [1]. In silico modelling of the MAT_Alpha1 domain indicates that its best scoring templates were structures of HMG-box proteins [2] and DOI: 10.4236/ojbiphy.2013.31001. Phylogenetic analysis suggests that the MAT_Alpha1 domain diverged from the MATA_HMG-box subfamily [2]. The name of MATalpha_HMG-box was proposed for the MAT_alpha1 domain [2].

Literature references

  1. Sengupta P, Cochran BH; , Genes Dev 1991;5:1924-1934.: MAT alpha 1 can mediate gene activation by a-mating factor. PUBMED:1916267 EPMC:1916267

  2. Martin T, Lu SW, van Tilbeurgh H, Ripoll DR, Dixelius C, Turgeon BG, Debuchy R;, PLoS One. 2010;5:e15199. : Tracing the origin of the fungal alpha1 domain places its ancestor in the HMG-box superfamily: implication for fungal mating-type evolution. PUBMED:21170349 EPMC:21170349

Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR006856

This entry represents the MAT Alpha1 domain, which is diverged from the MATA HMG-box domain [ PUBMED:21170349 ]. All ascomycete MAT idiomorphs encode proteins with confirmed or putative DNA-binding motifs [ PUBMED:11106025 , PUBMED:12679880 ]. The HMG-box domain can be found in a wide variety of DNA-binding proteins.

In S. cerevisiae, there are two copies of Alpha1: one copy is localised at the MAT locus, the other is localised at the HML locus (MAT alpha 1). The HML locus (HML alpha 1) copy is usually silenced by the Sir2 histone deacetylase. MAT alpha 1 is a transcriptional coactivator involved in the regulation of mating-type alpha-specific gene expression. It activates mating-type alpha-specific genes with the help of the MADS-box containing Mcm1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation [ PUBMED:15118075 ]. Alpha 1 interacts in vivo with Ste12, linking expression of alpha-specific genes to the alpha-pheromone ( INTERPRO ) response pathway [ PUBMED:8339934 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

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 HMG-box (CL0114), which has the following description:

This clan includes the DNA-binding HMG-box proteins as well as the YABBY-like transcription factors.

The clan contains the following 8 members:

Ccdc124 CHDNT HMG_box HMG_box_2 HMG_box_5 MATalpha_HMGbox Protamine_like YABBY


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Curation and family details

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Curation View help on the curation process

Seed source: DOMO:DM04990;
Previous IDs: MAT_Alpha1;
Type: Family
Sequence Ontology: SO:0100021
Author: Kerrison ND
Number in seed: 9
Number in full: 265
Average length of the domain: 174.70 aa
Average identity of full alignment: 24 %
Average coverage of the sequence by the domain: 52.80 %

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 28.1 28.1
Trusted cut-off 28.7 28.2
Noise cut-off 27.9 28.0
Model length: 194
Family (HMM) version: 15
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence


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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
P0CY06 View 3D Structure Click here
P0CY07 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;