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13  structures 1479  species 0  interactions 2975  sequences 55  architectures

Family: zf-CSL (PF05207)

Summary: CSL zinc finger

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.

CSL zinc finger Provide feedback

This is a zinc binding motif which contains four cysteine residues which chelate zinc [1]. This domain is often found associated with a PF00226 domain. This domain is named after the conserved motif of the final cysteine.

Literature references

  1. Sun J, Zhang J, Wu F, Xu C, Li S, Zhao W, Wu Z, Wu J, Zhou CZ, Shi Y; , Biochemistry 2005;44:8801-8809.: Solution structure of Kti11p from Saccharomyces cerevisiae reveals a novel zinc-binding module. PUBMED:15952786 EPMC:15952786


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR007872

This entry represents the DPH-type metal binding domain consists of a three-stranded beta-sandwich with one sheet comprising two parallel strands: (i) beta1 and (ii) beta6 and one anti-parallel strand: beta5. The second sheet in the beta-sandwich is comprised of strands beta2, beta3, and beta4 running anti-parallel to each other. The two beta-sheets are separated by a short stretch alpha-helix. It can be found in proteins such as DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ INTERPRO domain [ PUBMED:15952786 , PUBMED:22367199 , PUBMED:25543256 ].

Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death [ PUBMED:11595641 ]. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the the final conserved cysteine of the zinc finger and the next two residues) MB domain contains a Cys-X-Cys...Cys-X2-Cys motif which tetrahedrically coordinates both Fe and Zn. The Fe containing DPH-type MBD has an electron transfer activity [ PUBMED:14527407 , PUBMED:15485916 , PUBMED:15952786 , PUBMED:18021800 , PUBMED:22367199 , PUBMED:25543256 ].

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
(56)
Full
(2975)
Representative proteomes UniProt
(4770)
RP15
(568)
RP35
(1307)
RP55
(2192)
RP75
(3041)
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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
(56)
Full
(2975)
Representative proteomes UniProt
(4770)
RP15
(568)
RP35
(1307)
RP55
(2192)
RP75
(3041)
Alignment:
Format:
Order:
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
(56)
Full
(2975)
Representative proteomes UniProt
(4770)
RP15
(568)
RP35
(1307)
RP55
(2192)
RP75
(3041)
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_12353 (release 7.7)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Wood V , Bateman A , Mistry J
Number in seed: 56
Number in full: 2975
Average length of the domain: 58.30 aa
Average identity of full alignment: 38 %
Average coverage of the sequence by the domain: 37.99 %

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 29.2 29.2
Trusted cut-off 29.2 29.2
Noise cut-off 29.1 29.1
Model length: 59
Family (HMM) version: 16
Download: download the raw HMM for this family

Species distribution

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Colour assignments

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 zf-CSL domain has been found. There are 13 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
A0A1D8PHF7 View 3D Structure Click here
A4I2I4 View 3D Structure Click here
B4FZ77 View 3D Structure Click here
B6SIS6 View 3D Structure Click here
B6TQQ1 View 3D Structure Click here
D4A0Z4 View 3D Structure Click here
F1M2S2 View 3D Structure Click here
I1LIU2 View 3D Structure Click here
K7LPC5 View 3D Structure Click here
K7LT26 View 3D Structure Click here
O82623 View 3D Structure Click here
P0C0V4 View 3D Structure Click here
P0C0V5 View 3D Structure Click here
P0CN22 View 3D Structure Click here
P47138 View 3D Structure Click here
Q0J522 View 3D Structure Click here
Q0VBY7 View 3D Structure Click here
Q1LZC9 View 3D Structure Click here
Q21102 View 3D Structure Click here
Q3E840 View 3D Structure Click here
Q4CUR9 View 3D Structure Click here
Q4D9D5 View 3D Structure Click here
Q4I7G0 View 3D Structure Click here
Q4I9U7 View 3D Structure Click here
Q4P8G2 View 3D Structure Click here
Q4R312 View 3D Structure Click here
Q4WPF7 View 3D Structure Click here
Q4WPU8 View 3D Structure Click here
Q502H4 View 3D Structure Click here
Q54CI5 View 3D Structure Click here
Q5AD49 View 3D Structure Click here
Q5R7N8 View 3D Structure Click here
Q651U5 View 3D Structure Click here
Q67J13 View 3D Structure Click here
Q6BPC1 View 3D Structure Click here
Q6BTW5 View 3D Structure Click here
Q6C0G3 View 3D Structure Click here
Q6C6T1 View 3D Structure Click here
Q6CMG4 View 3D Structure Click here
Q6CUQ9 View 3D Structure Click here