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0  structures 78  species 0  interactions 668  sequences 10  architectures

Family: MFMR (PF07777)

Summary: G-box binding protein MFMR

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.

G-box binding protein MFMR Provide feedback

This region is found to the N-terminus of the PF00170 transcription factor domain. It is between 150 and 200 amino acids in length. The N-terminal half is rather rich in proline residues and has been termed the PRD (proline rich domain) [2] whereas the C-terminal half is more polar and has been called the MFMR (multifunctional mosaic region). It has been suggested that this family is composed of three sub-families called A, B and C [1] classified according to motif composition. It has been suggested that some of these motifs may be involved in mediating protein-protein interactions [1]. The MFMR region contains a nuclear localisation signal in bZIP opaque and GBF-2 [2]. The MFMR also contains a transregulatory activity in TAF-1. The MFMR in CPRF-2 contains cytoplasmic retention signals [2].

Literature references

  1. Meier I, Gruissem W; , Nucleic Acids Res 1994;22:470-478.: Novel conserved sequence motifs in plant G-box binding proteins and implications for interactive domains. PUBMED:8127687 EPMC:8127687

  2. Siberil Y, Doireau P, Gantet P; , Eur J Biochem 2001;268:5655-5666.: Plant bZIP G-box binding factors. Modular structure and activation mechanisms. PUBMED:11722549 EPMC:11722549


This tab holds annotation information from the InterPro database.

InterPro entry IPR012900

This region is often found to the N terminus of the basic-leucine zipper domain (INTERPRO). It is between 150 and 200 amino acids in length. The N-terminal half of this domain is rich in proline residues and has been termed the PRD (proline rich domain) [PUBMED:11722549], whereas the C-terminal half is more polar and has been called the MFMR (multifunctional mosaic region). According to their motif composition, proteins containing this domain can be classified into three sub-families called A, B and C [PUBMED:8127687]. It has been suggested that some of these motifs may be involved in mediating protein-protein interactions [PUBMED:8127687]. The MFMR region contains a nuclear localisation signal in bZIP opaque and GBF-2 [PUBMED:11722549]. The MFMR also contains a transregulatory activity in TAF-1. The MFMR in CPRF-2 contains cytoplasmic retention signals [PUBMED:11722549].

Domain organisation

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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
(41)
Full
(668)
Representative proteomes UniProt
(883)
NCBI
(1416)
Meta
(0)
RP15
(140)
RP35
(372)
RP55
(496)
RP75
(548)
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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
(41)
Full
(668)
Representative proteomes UniProt
(883)
NCBI
(1416)
Meta
(0)
RP15
(140)
RP35
(372)
RP55
(496)
RP75
(548)
Alignment:
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Sequence:
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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
(41)
Full
(668)
Representative proteomes UniProt
(883)
NCBI
(1416)
Meta
(0)
RP15
(140)
RP35
(372)
RP55
(496)
RP75
(548)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download    
Gzipped 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_5000 (release 14.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Fenech M , Bateman A
Number in seed: 41
Number in full: 668
Average length of the domain: 91.00 aa
Average identity of full alignment: 49 %
Average coverage of the sequence by the domain: 24.96 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.4 27.4
Trusted cut-off 27.7 27.5
Noise cut-off 27.2 27.0
Model length: 97
Family (HMM) version: 11
Download: download the raw HMM for this family

Species distribution

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