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2  structures 468  species 0  interactions 3556  sequences 55  architectures

Family: COMM_domain (PF07258)

Summary: COMM domain

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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.

COMM domain Provide feedback

The leucine-rich, 70-85 amino acid long COMM domain is predicted to form a beta-sheet and an extreme C-terminal alpha- helix. The COMM domain containing proteins are about 200 residues in length and passed the C-terminal COMM domain [1].

Literature references

  1. Burstein E, Hoberg JE, Wilkinson AS, Rumble JM, Csomos RA, Komarck CM, Maine GN, Wilkinson JC, Mayo MW, Duckett CS;, J Biol Chem. 2005;280:22222-22232.: COMMD proteins, a novel family of structural and functional homologs of MURR1. PUBMED:15799966 EPMC:15799966


This tab holds annotation information from the InterPro database.

InterPro entry IPR017920

The leucine-rich, 70-85 amino acid long COMM domain is predicted to form a beta-sheet [ PUBMED:15799966 ].

COMM (copper metabolism gene MURR1) domain proteins constitute a family initially identified as interacting partners of COMMD1 (previously known as MURR1), the prototype member of this protein family. COMMD1 is a multifunctional protein that has been shown to participate in two apparently distinct activities, regulation of the transcription factor NF-kappa-B and control of copper metabolism. The family is defined by the presence of a C-terminal motif termed COMM domain, which functions as an interface for protein-protein interactions. The proteins designated as COMMD or COMM domain containing 1-10 are extensively conserved in multicellular eukaryotic organisms [ PUBMED:15799966 , PUBMED:16573520 ].

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 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
(231)
Full
(3556)
Representative proteomes UniProt
(6382)
RP15
(650)
RP35
(1382)
RP55
(3016)
RP75
(3999)
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
(231)
Full
(3556)
Representative proteomes UniProt
(6382)
RP15
(650)
RP35
(1382)
RP55
(3016)
RP75
(3999)
Alignment:
Format:
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Sequence:
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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
(231)
Full
(3556)
Representative proteomes UniProt
(6382)
RP15
(650)
RP35
(1382)
RP55
(3016)
RP75
(3999)
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: Pfam-B_17801 (release 10.0)
Previous IDs: HCaRG;
Type: Domain
Sequence Ontology: SO:0000417
Author: Moxon SJ , Bateman A
Number in seed: 231
Number in full: 3556
Average length of the domain: 62.80 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 31.57 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.4 22.4
Trusted cut-off 22.4 22.4
Noise cut-off 22.3 22.3
Model length: 64
Family (HMM) version: 16
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

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 COMM_domain domain has been found. There are 2 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
A0A0G2K6N9 View 3D Structure Click here
A4QN68 View 3D Structure Click here
B0BNB1 View 3D Structure Click here
B0K015 View 3D Structure Click here
B8A6D0 View 3D Structure Click here
D3ZLN7 View 3D Structure Click here
D4A8E7 View 3D Structure Click here
E7EZ21 View 3D Structure Click here
E9QCG0 View 3D Structure Click here
F1Q509 View 3D Structure Click here
F1QJA8 View 3D Structure Click here
F1QVM4 View 3D Structure Click here
F1RE23 View 3D Structure Click here
Q14V34 View 3D Structure Click here
Q3MIE7 View 3D Structure Click here
Q3V4B5 View 3D Structure Click here
Q499V0 View 3D Structure Click here
Q54CU8 View 3D Structure Click here
Q54DR0 View 3D Structure Click here
Q54EP6 View 3D Structure Click here
Q54MA5 View 3D Structure Click here
Q54P14 View 3D Structure Click here
Q54QK4 View 3D Structure Click here
Q550I8 View 3D Structure Click here
Q554G3 View 3D Structure Click here
Q63829 View 3D Structure Click here
Q68FS9 View 3D Structure Click here
Q6DH33 View 3D Structure Click here
Q6P9U3 View 3D Structure Click here
Q76NP9 View 3D Structure Click here
Q7Z4G1 View 3D Structure Click here
Q86I14 View 3D Structure Click here
Q86IW8 View 3D Structure Click here
Q86VX2 View 3D Structure Click here
Q86X83 View 3D Structure Click here
Q8BG94 View 3D Structure Click here
Q8BXC6 View 3D Structure Click here
Q8JZY2 View 3D Structure Click here
Q8K2Q0 View 3D Structure Click here
Q8K4M5 View 3D Structure Click here
Q8N668 View 3D Structure Click here
Q8R395 View 3D Structure Click here
Q9CQ02 View 3D Structure Click here
Q9CZG3 View 3D Structure Click here
Q9ERR2 View 3D Structure Click here
Q9GZQ3 View 3D Structure Click here
Q9H0A8 View 3D Structure Click here
Q9I7W2 View 3D Structure Click here
Q9NX08 View 3D Structure Click here
Q9P000 View 3D Structure Click here
Q9UBI1 View 3D Structure Click here
Q9VEB2 View 3D Structure Click here
Q9VYV9 View 3D Structure Click here
Q9Y6G5 View 3D Structure Click here