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177  structures 5777  species 0  interactions 7684  sequences 53  architectures

Family: NAPRTase (PF04095)

Summary: Nicotinate phosphoribosyltransferase (NAPRTase) family

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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.

Nicotinate phosphoribosyltransferase (NAPRTase) family Provide feedback

Nicotinate phosphoribosyltransferase ( EC:2.4.2.11) is the rate limiting enzyme that catalyses the first reaction in the NAD salvage synthesis. This family also includes Pre-B cell enhancing factor that is a cytokine P43490. This family is related to Quinolinate phosphoribosyltransferase PF01729.

Literature references

  1. Dulyaninova NG, Podlepa EM, Toulokhonova1 LV, Bykhovsky VY; , Biochim Biophys Acta 2000;1478:211-220.: Salvage pathway for NAD biosynthesis in Brevibacterium ammoniagenes: regulatory properties of triphosphate-dependent nicotinate phosphoribosyltransferase. PUBMED:10825532 EPMC:10825532


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR041525

Nicotinate phosphoribosyltransferase ( EC ) is the rate-limiting enzyme that catalyses the first reaction in the NAD salvage synthesis [ PUBMED:18490451 ]. Members in this family can be split into two further subfamilies represented in INTERPRO and INTERPRO . Members in IPR006405 have a different (longer) spacing of several key motifs and have an additional C-terminal domain of up to 100 residues. However, one argument suggesting that this family represents the same enzyme is that no species has a member of both subfamilies. Another is that the gene encoding this protein is located near other NAD salvage biosynthesis genes in Nostoc and in at least four different Gram-positive bacteria.

Nicotinamide phosphoribosyl transferase (NAMPT) catalyses the condensation of nicotinamide with 5-phosphoribosyl-1-pyrophosphate to yield nicotinamide mononucleotide, an intermediate in the biosynthesis of NAD [ PUBMED:19149599 , PUBMED:19109034 ]. NAMPT is also known as pre-B cell colony-enhancing factor (PBEF) or visfatin.

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
(14)
Full
(7684)
Representative proteomes UniProt
(31723)
RP15
(1356)
RP35
(3705)
RP55
(7391)
RP75
(12722)
Jalview View  View  View  View  View  View  View 
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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
(14)
Full
(7684)
Representative proteomes UniProt
(31723)
RP15
(1356)
RP35
(3705)
RP55
(7391)
RP75
(12722)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(14)
Full
(7684)
Representative proteomes UniProt
(31723)
RP15
(1356)
RP35
(3705)
RP55
(7391)
RP75
(12722)
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_5038 (release 7.3) & Pfam-B_5422 (Release 7.5)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Wood V , Finn RD , Bateman A
Number in seed: 14
Number in full: 7684
Average length of the domain: 228.80 aa
Average identity of full alignment: 23 %
Average coverage of the sequence by the domain: 50.15 %

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 20.8 20.8
Trusted cut-off 20.8 20.8
Noise cut-off 20.7 20.7
Model length: 247
Family (HMM) version: 19
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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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 NAPRTase domain has been found. There are 177 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
A0A0G2KDZ8 View 3D Structure Click here
A0A1D6EAS2 View 3D Structure Click here
A0A1D6J6Z3 View 3D Structure Click here
A0A1D8PRI0 View 3D Structure Click here
A0A2R8Q4W0 View 3D Structure Click here
A0A2R8Q5I4 View 3D Structure Click here
A0A2R8QPL7 View 3D Structure Click here
A0A2R8S0I0 View 3D Structure Click here
A1SVJ9 View 3D Structure Click here
A1UUA2 View 3D Structure Click here
A1W8S8 View 3D Structure Click here
A1WJL0 View 3D Structure Click here
A4G168 View 3D Structure Click here
A4I8W0 View 3D Structure Click here
A4XS60 View 3D Structure Click here
A4YK54 View 3D Structure Click here
A6WV52 View 3D Structure Click here
A8AIE5 View 3D Structure Click here
A9IIC5 View 3D Structure Click here
A9MHU8 View 3D Structure Click here
B2U8V2 View 3D Structure Click here
B2VC92 View 3D Structure Click here
B4EVC0 View 3D Structure Click here
B9J6S5 View 3D Structure Click here
B9JYR4 View 3D Structure Click here
C0PHJ7 View 3D Structure Click here
C0QFM5 View 3D Structure Click here
C3MFW1 View 3D Structure Click here
C5BD56 View 3D Structure Click here
E7F8T6 View 3D Structure Click here
F1RDZ8 View 3D Structure Click here
K7MM50 View 3D Structure Click here
O32090 View 3D Structure Click here
P18133 View 3D Structure Click here
P22253 View 3D Structure Click here
P39683 View 3D Structure Click here
P43490 View 3D Structure Click here
P47283 View 3D Structure Click here
P57442 View 3D Structure Click here
P75067 View 3D Structure Click here