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70  structures 2223  species 1  interaction 3227  sequences 23  architectures

Family: TENA_THI-4 (PF03070)

Summary: TENA/THI-4/PQQC family

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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.

TENA/THI-4/PQQC family Provide feedback

Members of this family are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes. In Bacillus subtilis, TENA is one of a number of proteins that enhance the expression of extracellular enzymes, such as alkaline protease, neutral protease and levansucrase [1]. The THI-4 protein, which is involved in thiamine biosynthesis, is also a member of this family. The C-terminal part of these proteins consistently show significant sequence similarity to TENA proteins. This similarity was first noted with the Neurospora crassa THI-4 [2]. This family includes bacterial coenzyme PQQ synthesis protein C or PQQC proteins. Pyrroloquinoline quinone (PQQ) is the prosthetic group of several bacterial enzymes,including methanol dehydrogenase of methylotrophs and the glucose dehydrogenase of a number of bacteria [3]. PQQC has been found to be required in the synthesis of PQQ but its function is unclear. The exact molecular function of members of this family is uncertain.

Literature references

  1. Pang AS, Nathoo S, Wong SL; , J Bacteriol 1991;173:46-54.: Cloning and characterization of a pair of novel genes that regulate production of extracellular enzymes in Bacillus subtilis. PUBMED:1898926 EPMC:1898926

  2. Akiyama M, Nakashima H; , Curr Genet 1996;30:62-67.: Molecular cloning of thi-4, a gene necessary for the biosynthesis of thiamine in Neurospora crassa. PUBMED:8662211 EPMC:8662211

  3. Toyama H, Fukumoto H, Saeki M, Matsushita K, Adachi O, Lidstrom ME; , Biochem Biophys Res Commun 2002;299:268-272.: PqqC/D, which converts a biosynthetic intermediate to pyrroloquinoline quinone. PUBMED:12437981 EPMC:12437981


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR004305

Proteins containing this domain are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes. In Bacillus subtilis, TenA is one of a number of proteins that enhance the expression of extracellular enzymes, such as alkaline protease, neutral protease and levansucrase [PUBMED:1898926] and has been identified as a Thiaminase 2 [PUBMED:15709744]. The THI-4 protein, which is involved in thiamine biosynthesis, also contains this domain. The C-terminal part of these proteins consistently show significant sequence similarity to TenA proteins. This similarity was first noted with the Neurospora crassa THI-4 [PUBMED:8662211].

This domain is also found in bacterial coenzyme PQQ synthesis protein C or PQQC. Pyrroloquinoline quinone (PQQ) is the prosthetic group of several bacterial enzymes,including methanol dehydrogenase of methylotrophs and the glucose dehydrogenase of a number of bacteria [PUBMED:12437981]. PQQC has been found to be required in the synthesis of PQQ, but its function is unclear.

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 HO (CL0230), which has the following description:

This clan includes the Heme oxygenase family as well as the TENA/THI-4/PQQC family that are less well characterised [2].

The clan contains the following 5 members:

DUF3050 DUF3865 Haem_oxygenas_2 Heme_oxygenase TENA_THI-4

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 using the family HMM. We also generate alignments using four representative proteomes (RP) sets, 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
(25)
Full
(3227)
Representative proteomes NCBI
(2427)
Meta
(629)
RP15
(226)
RP35
(474)
RP55
(673)
RP75
(822)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(25)
Full
(3227)
Representative proteomes NCBI
(2427)
Meta
(629)
RP15
(226)
RP35
(474)
RP55
(673)
RP75
(822)
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
(25)
Full
(3227)
Representative proteomes NCBI
(2427)
Meta
(629)
RP15
(226)
RP35
(474)
RP55
(673)
RP75
(822)
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.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

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_2039 (release 6.4) & Pfam-B_7791 (release 7.7)
Previous IDs: none
Type: Family
Author: Mifsud W
Number in seed: 25
Number in full: 3227
Average length of the domain: 201.20 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 78.91 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.2 20.2
Trusted cut-off 20.2 20.2
Noise cut-off 20.1 20.1
Model length: 210
Family (HMM) version: 11
Download: download the raw HMM for this family

Species distribution

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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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Interactions

There is 1 interaction for this family. More...

TENA_THI-4

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 TENA_THI-4 domain has been found. There are 70 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 seqence.

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