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16  structures 3430  species 0  interactions 4540  sequences 34  architectures

Family: SufE (PF02657)

Summary: Fe-S metabolism associated domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

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.

Fe-S metabolism associated domain Provide feedback

This family consists of the SufE-related proteins. These have been implicated in Fe-S metabolism and export [1]).

Literature references

  1. Nachin L, El Hassouni M, Loiseau L, Expert D, Barras F; , Mol Microbiol 2001;39:960-972.: SoxR-dependent response to oxidative stress and virulence of Erwinia chrysanthemi: the key role of SufC, an orphan ABC ATPase. PUBMED:11251816 EPMC:11251816


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003808

This entry represents the core domain of SufE and related proteins. This domain of SufE shows strong structural similarity to IscU, and the sulfur-acceptor site in SufE coincides with the location of the cysteine residues mediating Fe-S cluster assembly in IscU. Thus, a conserved core structure is implicated in mediating the interactions of both SufE and IscU with the mutually homologous cysteine desulfurase enzymes present in their respective operons [ PUBMED:15522304 ].

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 SufE_NifU (CL0233), which has the following description:

This clan includes iron sulfur cluster assembly proteins.

The clan contains the following 4 members:

CO_deh_flav_C Lip_prot_lig_C NifU_N SufE

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
(319)
Full
(4540)
Representative proteomes UniProt
(21061)
RP15
(562)
RP35
(2084)
RP55
(4632)
RP75
(8313)
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
(319)
Full
(4540)
Representative proteomes UniProt
(21061)
RP15
(562)
RP35
(2084)
RP55
(4632)
RP75
(8313)
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
(319)
Full
(4540)
Representative proteomes UniProt
(21061)
RP15
(562)
RP35
(2084)
RP55
(4632)
RP75
(8313)
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: COG2166
Previous IDs: UPF0050;
Type: Family
Sequence Ontology: SO:0100021
Author: Bashton M , Bateman A
Number in seed: 319
Number in full: 4540
Average length of the domain: 122 aa
Average identity of full alignment: 32 %
Average coverage of the sequence by the domain: 62.62 %

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 27.0 27.0
Trusted cut-off 27.0 27.0
Noise cut-off 26.8 26.4
Model length: 122
Family (HMM) version: 18
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 SufE domain has been found. There are 16 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
A0A0H3GXK3 View 3D Structure Click here
A0A0H3GZD1 View 3D Structure Click here
A0A0R0FV61 View 3D Structure Click here
A0A1D6MTY1 View 3D Structure Click here
A6TAE3 View 3D Structure Click here
A8AH79 View 3D Structure Click here
A9MEP2 View 3D Structure Click here
I1K055 View 3D Structure Click here
I1KI20 View 3D Structure Click here
K7MPD5 View 3D Structure Click here
K7V945 View 3D Structure Click here
O96155 View 3D Structure Click here
P0AGF2 View 3D Structure Click here
P0AGF3 View 3D Structure Click here
P44156 View 3D Structure Click here
P74523 View 3D Structure Click here
P76194 View 3D Structure Click here
P9WGC3 View 3D Structure Click here
Q10RM2 View 3D Structure Click here
Q2QTL0 View 3D Structure Click here
Q32CA7 View 3D Structure Click here
Q32F89 View 3D Structure Click here
Q52742 View 3D Structure Click here
Q52967 View 3D Structure Click here
Q6D624 View 3D Structure Click here
Q6K258 View 3D Structure Click here
Q74TH2 View 3D Structure Click here
Q7ADI5 View 3D Structure Click here
Q7C1E6 View 3D Structure Click here
Q7CPV7 View 3D Structure Click here
Q7N3U6 View 3D Structure Click here
Q84W65 View 3D Structure Click here
Q8D2J8 View 3D Structure Click here
Q8ZPQ1 View 3D Structure Click here
Q9EXP1 View 3D Structure Click here
Q9FGS4 View 3D Structure Click here
Q9FXE3 View 3D Structure Click here
Q9HXX2 View 3D Structure Click here
X8FAP6 View 3D Structure Click here