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581  structures 8087  species 0  interactions 36172  sequences 217  architectures

Family: TPP_enzyme_N (PF02776)

Summary: Thiamine pyrophosphate enzyme, N-terminal TPP binding 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.

Thiamine pyrophosphate enzyme, N-terminal TPP binding domain Provide feedback

No Pfam abstract.

Literature references

  1. Arjunan P, Umland T, Dyda F, Swaminathan S, Furey W, Sax M, Farrenkopf B, Gao Y, Zhang D, Jordan F; , J Mol Biol 1996;256:590-600.: Crystal structure of the thiamin diphosphate-dependent enzyme pyruvate decarboxylase from the yeast Saccharomyces cerevisiae at 2.3 A resolution. PUBMED:8604141 EPMC:8604141


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR012001

A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [ PUBMED:8604141 ] that some of these enzymes are structurally related. This represents the N-terminal TPP binding domain of TPP enzymes.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

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 THDP-binding (CL0254), which has the following description:

This clan includes pyruvate dehydrogenases, branched chain alpha-keto acid decarboxylases, phosphoketolases and the pyrimidine binding region of transketolases.

The clan contains the following 10 members:

DXP_synthase_N E1_dh PDH_E1_M POR_N TPP_enzyme_C TPP_enzyme_N Transket_pyr Transketolase_N XFP XFP_N

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
(76)
Full
(36172)
Representative proteomes UniProt
(166761)
RP15
(3796)
RP35
(15441)
RP55
(34864)
RP75
(62525)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

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

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

Format an alignment

  Seed
(76)
Full
(36172)
Representative proteomes UniProt
(166761)
RP15
(3796)
RP35
(15441)
RP55
(34864)
RP75
(62525)
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
(76)
Full
(36172)
Representative proteomes UniProt
(166761)
RP15
(3796)
RP35
(15441)
RP55
(34864)
RP75
(62525)
Raw Stockholm Download   Download   Download   Download   Download   Download    
Gzipped 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: Prosite
Previous IDs: TPP_enzymes_N;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Griffiths-Jones SR
Number in seed: 76
Number in full: 36172
Average length of the domain: 169.60 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 29.65 %

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 26.8 26.8
Trusted cut-off 26.8 26.8
Noise cut-off 26.7 26.7
Model length: 172
Family (HMM) version: 20
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 TPP_enzyme_N domain has been found. There are 581 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
A0A0P0V4F6 View 3D Structure Click here
A0A0P0W9X0 View 3D Structure Click here
A0A0R0F259 View 3D Structure Click here
A0A0R0GLC6 View 3D Structure Click here
A0A0R0KAA8 View 3D Structure Click here
A0A0R0KF48 View 3D Structure Click here
A0A0R0KKW5 View 3D Structure Click here
A0A0R4J2I4 View 3D Structure Click here
A0A0R4J3M4 View 3D Structure Click here
A0A1D6FF26 View 3D Structure Click here
A0A1D6FS81 View 3D Structure Click here
A0A1D6HBM9 View 3D Structure Click here
A0A1D6IP62 View 3D Structure Click here
A0A1D6K3R6 View 3D Structure Click here
A0A1D8PJF9 View 3D Structure Click here
A0A1D8PLD6 View 3D Structure Click here
A0A368UI94 View 3D Structure Click here
A1L0T0 View 3D Structure Click here
A3BFW9 View 3D Structure Click here
A4I3N7 View 3D Structure Click here
A4IA92 View 3D Structure Click here
B0G117 View 3D Structure Click here
C0PCJ8 View 3D Structure Click here
C6KT35 View 3D Structure Click here
D2DJQ3 View 3D Structure Click here
D4ACG2 View 3D Structure Click here
F1RB36 View 3D Structure Click here
I1JHQ1 View 3D Structure Click here
I1KC25 View 3D Structure Click here
I1KUA8 View 3D Structure Click here
I1M1V8 View 3D Structure Click here
I1MBN8 View 3D Structure Click here
I1MEG7 View 3D Structure Click here
I1MJR9 View 3D Structure Click here
K7TWQ8 View 3D Structure Click here
O06335 View 3D Structure Click here
O42873 View 3D Structure Click here
O53554 View 3D Structure Click here
O53639 View 3D Structure Click here
O61856 View 3D Structure Click here
O82647 View 3D Structure Click here
P00893 View 3D Structure Click here
P06169 View 3D Structure Click here
P07003 View 3D Structure Click here
P07342 View 3D Structure Click here
P08142 View 3D Structure Click here
P0AEP7 View 3D Structure Click here
P0AFI0 View 3D Structure Click here
P0DP89 View 3D Structure Click here
P16467 View 3D Structure Click here
P17109 View 3D Structure Click here
P17597 View 3D Structure Click here
P26263 View 3D Structure Click here
P28516 View 3D Structure Click here
P36620 View 3D Structure Click here
P39994 View 3D Structure Click here
P58415 View 3D Structure Click here
P83779 View 3D Structure Click here
P9WG37 View 3D Structure Click here
P9WG39 View 3D Structure Click here
P9WG41 View 3D Structure Click here
P9WK11 View 3D Structure Click here
Q06408 View 3D Structure Click here
Q07471 View 3D Structure Click here
Q09737 View 3D Structure Click here
Q0D3D2 View 3D Structure Click here
Q0DHF6 View 3D Structure Click here
Q0JMH0 View 3D Structure Click here
Q10MW3 View 3D Structure Click here
Q15KI9 View 3D Structure Click here
Q17474 View 3D Structure Click here
Q2FV86 View 3D Structure Click here
Q2FW49 View 3D Structure Click here
Q2FWK6 View 3D Structure Click here
Q2FZL7 View 3D Structure Click here
Q2G1H0 View 3D Structure Click here
Q41768 View 3D Structure Click here
Q41769 View 3D Structure Click here
Q4D2Y0 View 3D Structure Click here
Q4D595 View 3D Structure Click here
Q53PQ3 View 3D Structure Click here
Q54DA9 View 3D Structure Click here
Q54FW8 View 3D Structure Click here
Q57725 View 3D Structure Click here
Q58077 View 3D Structure Click here
Q59MU3 View 3D Structure Click here
Q6AUJ8 View 3D Structure Click here
Q6K2E8 View 3D Structure Click here
Q6NV04 View 3D Structure Click here
Q7K3B7 View 3D Structure Click here
Q7XDB0 View 3D Structure Click here
Q7XKQ8 View 3D Structure Click here
Q8BU33 View 3D Structure Click here
Q8CHM7 View 3D Structure Click here
Q8RUU6 View 3D Structure Click here
Q8S4W9 View 3D Structure Click here
Q92345 View 3D Structure Click here
Q9FFT4 View 3D Structure Click here
Q9LF46 View 3D Structure Click here
Q9LGL5 View 3D Structure Click here
Q9M039 View 3D Structure Click here
Q9M040 View 3D Structure Click here
Q9P7P6 View 3D Structure Click here
Q9QXE0 View 3D Structure Click here
Q9UJ83 View 3D Structure Click here
Q9Y7M1 View 3D Structure Click here