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10  structures 710  species 2  interactions 1355  sequences 40  architectures

Family: MRG (PF05712)

Summary: MRG

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

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.

MRG Provide feedback

This family consists of three different eukaryotic proteins (mortality factor 4 (MORF4/MRG15), male-specific lethal 3(MSL-3) and ESA1-associated factor 3(EAF3)). It is thought that the MRG family is involved in transcriptional regulation via histone acetylation [1]. It contains 2 chromo domains and a leucine zipper motif [3].

Literature references

  1. Bertram MJ, Pereira-Smith OM; , Gene 2001;266:111-121.: Conservation of the MORF4 related gene family: identification of a new chromo domain subfamily and novel protein motif. PUBMED:11290425 EPMC:11290425

  2. Eisen A, Utley RT, Nourani A, Allard S, Schmidt P, Lane WS, Lucchesi JC, Cote J; , J Biol Chem 2001;276:3484-3491.: The yeast NuA4 and Drosophila MSL complexes contain homologous subunits important for transcription regulation. PUBMED:11036083 EPMC:11036083

  3. Nakayama J, Xiao G, Noma K, Malikzay A, Bjerling P, Ekwall K, Kobayashi R, Grewal SI; , EMBO J 2003;22:2776-2787.: Alp13, an MRG family protein, is a component of fission yeast Clr6 histone deacetylase required for genomic integrity. PUBMED:12773392 EPMC:12773392


This tab holds annotation information from the InterPro database.

InterPro entry IPR026541

MORF4 (mortality factor on chromosome 4), MRG15 (MORF4-related gene on chromosome 15) and MRGX (MORF4-related gene on chromosome X) are members of the MRG protein family that were first identified as transcription factors involved in cellular senescence. All expressed members of the MRG family are localized to the nucleus and have predicted motifs that indicate they function as chromatin remodeling complex components. MORF4, MRG15 and MRGX share a common C-terminal part but a different N-terminal part. The C-terminal similarity of all MRG family members (MORF4, MRG15 and MRGX homologues) defines a new conserved protein domain. The ~170 amino acid MRG domain binds a plethora of transcriptional regulators and chromatin-remodeling factors, including the histone deacetylase transriptional corepressor mSin3A and the nuclear protein PAM14 (protein-associated MRG, 14kDa) [PUBMED:9891081, PUBMED:11290425].

The MRG domain consists of three conserved blocks. It is predominantly hydrophobic, and consists of mainly alpha-helices that are arranged in a three layer sandwich topology. The hydrophobic core is stabilised by interactions among a number of conserved hydrophobic residues. The molecular surface is largely hydrophobic, but contains a few hydrophilic patches [PUBMED:16407074, PUBMED:17008723, PUBMED:22244764].

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...

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
(59)
Full
(1355)
Representative proteomes UniProt
(2067)
NCBI
(2785)
Meta
(4)
RP15
(362)
RP35
(707)
RP55
(1081)
RP75
(1314)
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PP/heatmap 1 View               

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(59)
Full
(1355)
Representative proteomes UniProt
(2067)
NCBI
(2785)
Meta
(4)
RP15
(362)
RP35
(707)
RP55
(1081)
RP75
(1314)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(59)
Full
(1355)
Representative proteomes UniProt
(2067)
NCBI
(2785)
Meta
(4)
RP15
(362)
RP35
(707)
RP55
(1081)
RP75
(1314)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   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: Pfam-B_5530 (release 8.0)
Previous IDs: none
Type: Family
Author: Moxon SJ, Mistry J, Wood V
Number in seed: 59
Number in full: 1355
Average length of the domain: 192.10 aa
Average identity of full alignment: 31 %
Average coverage of the sequence by the domain: 53.50 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 26740544 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.5 20.5
Trusted cut-off 21.2 20.5
Noise cut-off 20.4 19.8
Model length: 192
Family (HMM) version: 12
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Selections

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Interactions

There are 2 interactions for this family. More...

MRG PEHE

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 MRG domain has been found. There are 10 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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