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9  structures 160  species 0  interactions 4768  sequences 51  architectures

Family: bHLH-MYC_N (PF14215)

Summary: bHLH-MYC and R2R3-MYB transcription factors N-terminal

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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.

bHLH-MYC and R2R3-MYB transcription factors N-terminal Provide feedback

This is the N-terminal region of a family of MYB and MYC transcription factors. The DNA-binding HLH domain is further downstream, PF00010. Members of the MYB and MYC family regulate the biosynthesis of phenylpropanoids in several plant species ( DOI:10.1007/s11295-009-0232-y).

Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR025610

This is the N-terminal region of a family of MYB and MYC transcription factors. The DNA-binding HLH domain is further downstream, . Members of the MYB and MYC family regulate the biosynthesis of phenylpropanoids in several plant species [ PUBMED:10066590 , PUBMED:20112051 ].

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 GAF (CL0161), which has the following description:

A clan of related transcriptional regulator domains.

The clan contains the following 18 members:

Autoind_bind bHLH-MYC_N CCB2_CCB4 CodY DraK_HK_N DUF3369 DUF484 DUF5628 GAF GAF_2 GAF_3 HbpS-like HNOBA HrcA IclR PdtaS_GAF PHY SpoVT_C

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 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
(113)
Full
(4768)
Representative proteomes UniProt
(7607)
RP15
(661)
RP35
(2602)
RP55
(4064)
RP75
(5255)
Jalview View  View  View  View  View  View  View 
HTML View  View           
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
(113)
Full
(4768)
Representative proteomes UniProt
(7607)
RP15
(661)
RP35
(2602)
RP55
(4064)
RP75
(5255)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(113)
Full
(4768)
Representative proteomes UniProt
(7607)
RP15
(661)
RP35
(2602)
RP55
(4064)
RP75
(5255)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped 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: Jackhmmer:A8MSG2
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Coggill P
Number in seed: 113
Number in full: 4768
Average length of the domain: 152.20 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 28.34 %

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 30.2 30.2
Trusted cut-off 30.2 30.2
Noise cut-off 30.1 30.1
Model length: 177
Family (HMM) version: 9
Download: download the raw HMM for this family

Species distribution

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Selections

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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...

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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 bHLH-MYC_N domain has been found. There are 9 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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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
A0A060D780 View 3D Structure Click here
A0A0P0WDK6 View 3D Structure Click here
A0A0P0X1N4 View 3D Structure Click here
A0A0P0X425 View 3D Structure Click here
A0A0P0Y0X8 View 3D Structure Click here
A0A0P0Y0Z7 View 3D Structure Click here
A0A0R0ELN4 View 3D Structure Click here
A0A0R0GWP4 View 3D Structure Click here
A0A0R0IT59 View 3D Structure Click here
A0A0R0J2A9 View 3D Structure Click here
A0A0R0LAI5 View 3D Structure Click here
A0A1D6EHW9 View 3D Structure Click here
A0A1D6F753 View 3D Structure Click here
A0A1D6G9X4 View 3D Structure Click here
A0A1D6HFT3 View 3D Structure Click here
A0A1D6HK04 View 3D Structure Click here
A0A1D6HQK6 View 3D Structure Click here
A0A1D6HW08 View 3D Structure Click here
A0A1D6JC58 View 3D Structure Click here
A0A1D6JD20 View 3D Structure Click here
A0A1D6K972 View 3D Structure Click here
A0A1D6MEW5 View 3D Structure Click here
A0A1D6MZR6 View 3D Structure Click here
A0A1D6N9I2 View 3D Structure Click here
A0A1D6PBY6 View 3D Structure Click here
A8MSG2 View 3D Structure Click here
B7F427 View 3D Structure Click here
F4IXI5 View 3D Structure Click here
I1J5B5 View 3D Structure Click here
I1J6C6 View 3D Structure Click here
I1JC07 View 3D Structure Click here
I1JK86 View 3D Structure Click here
I1JNT5 View 3D Structure Click here
I1K6H9 View 3D Structure Click here
I1K821 View 3D Structure Click here
I1KDT1 View 3D Structure Click here
I1KHR7 View 3D Structure Click here
I1KHU7 View 3D Structure Click here
I1KIA8 View 3D Structure Click here
I1KPA9 View 3D Structure Click here