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2  structures 137  species 0  interactions 1891  sequences 41  architectures

Family: NADPH_Ox (PF08414)

Summary: Respiratory burst NADPH oxidase

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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.

Respiratory burst NADPH oxidase Provide feedback

This domain is found in plant proteins such as respiratory burst NADPH oxidase proteins which produce reactive oxygen species as a defence mechanism. It tends to occur to the N-terminus of an EF-hand (PF00036), which suggests a direct regulatory effect of Ca2+ on the activity of the NADPH oxidase in plants [1].

Literature references

  1. Torres MA, Onouchi H, Hamada S, Machida C, Hammond-Kosack KE, Jones JD; , Plant J 1998;14:365-370.: Six Arabidopsis thaliana homologues of the human respiratory burst oxidase (gp91phox). PUBMED:9628030 EPMC:9628030


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013623

This domain is found in plant proteins such as respiratory burst NADPH oxidase proteins which produce reactive oxygen species as a defence mechanism. It tends to occur to the N terminus of an EF-hand ( INTERPRO ), which suggests a direct regulatory effect of Ca2+ on the activity of the NADPH oxidase in plants [ PUBMED:9628030 ].

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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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
(58)
Full
(1891)
Representative proteomes UniProt
(2594)
RP15
(143)
RP35
(851)
RP55
(1461)
RP75
(2047)
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
(58)
Full
(1891)
Representative proteomes UniProt
(2594)
RP15
(143)
RP35
(851)
RP55
(1461)
RP75
(2047)
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
(58)
Full
(1891)
Representative proteomes UniProt
(2594)
RP15
(143)
RP35
(851)
RP55
(1461)
RP75
(2047)
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_2127 (release 18.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Wuster A
Number in seed: 58
Number in full: 1891
Average length of the domain: 95.60 aa
Average identity of full alignment: 48 %
Average coverage of the sequence by the domain: 12.07 %

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 21.9 21.9
Trusted cut-off 22.8 22.8
Noise cut-off 21.7 21.7
Model length: 101
Family (HMM) version: 12
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 NADPH_Ox 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
A0A0P0V7V7 View 3D Structure Click here
A0A0P0XGC6 View 3D Structure Click here
A0A0R0G2R3 View 3D Structure Click here
A0A0R0HTY5 View 3D Structure Click here
A0A0R0JYE8 View 3D Structure Click here
A0A1D6F6A5 View 3D Structure Click here
A0A1D6F6C5 View 3D Structure Click here
A0A1D6F6D4 View 3D Structure Click here
A0A1D6I559 View 3D Structure Click here
A0A1D6I559 View 3D Structure Click here
A0A1D6IWH8 View 3D Structure Click here
A0A1D6KNE5 View 3D Structure Click here
A0A1D6MAD7 View 3D Structure Click here
A0A1D6MT19 View 3D Structure Click here
A0A1D6MTM7 View 3D Structure Click here
A0A1D6N7P2 View 3D Structure Click here
A0A1D6ND49 View 3D Structure Click here
A0A1D6NL05 View 3D Structure Click here
A0A1D6QI90 View 3D Structure Click here
I1JAA1 View 3D Structure Click here
I1JRB1 View 3D Structure Click here
I1JXT0 View 3D Structure Click here
I1K6D2 View 3D Structure Click here
I1KBU7 View 3D Structure Click here
I1KJX2 View 3D Structure Click here
I1KP09 View 3D Structure Click here
I1KPG0 View 3D Structure Click here
I1L1T9 View 3D Structure Click here
I1LGC3 View 3D Structure Click here
I1MT65 View 3D Structure Click here
I1NBY2 View 3D Structure Click here
K7KME9 View 3D Structure Click here
K7N129 View 3D Structure Click here
K7N5A2 View 3D Structure Click here
K7UWK1 View 3D Structure Click here
K7V0F9 View 3D Structure Click here
O48538 View 3D Structure Click here
O81209 View 3D Structure Click here
O81210 View 3D Structure Click here
O81211 View 3D Structure Click here
Q0DHH6 View 3D Structure Click here
Q2QP56 View 3D Structure Click here
Q5ZAJ0 View 3D Structure Click here
Q65XC8 View 3D Structure Click here
Q69LJ7 View 3D Structure Click here
Q8S1T0 View 3D Structure Click here
Q9FIJ0 View 3D Structure Click here
Q9FJD6 View 3D Structure Click here
Q9LZU9 View 3D Structure Click here
Q9SBI0 View 3D Structure Click here
Q9SUT8 View 3D Structure Click here
Q9SW17 View 3D Structure Click here