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27  structures 1718  species 0  interactions 6454  sequences 92  architectures

Family: Prefoldin_2 (PF01920)

Summary: Prefoldin subunit

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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.

Prefoldin subunit Provide feedback

This family includes prefoldin subunits that are not detected by PF02996.

Literature references

  1. Ha H, Abe K, Artzt K; , Gene 1991;107:345-346.: Primary structure of the embryo-expressed gene KE2 from the mouse H-2K region. PUBMED:1748305 EPMC:1748305

  2. Shang HS, Wong SM, Tan HM, Wu M; , Gene 1994;151:197-201.: YKE2, a yeast nuclear gene encoding a protein showing homology to mouse KE2 and containing a putative leucine-zipper motif. PUBMED:7828874 EPMC:7828874

  3. Geissler S, Siegers K, Schiebel E; , EMBO J 1998;17:952-966.: A novel protein complex promoting formation of functional alpha- and gamma-tubulin. PUBMED:9463374 EPMC:9463374


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002777

Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [ PUBMED:11106732 , PUBMED:12456645 ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6.

Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.

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 Prefoldin (CL0200), which has the following description:

The Prefoldin domain forms a coiled-coil structure that is involved in substrate-binding in the the chaperone co-factor prefoldin (PFD). Each PFD is assembled from two alpha and four beta subunits. Each alpha subunit contains two, and each beta subunit one, central beta-hairpin that is flanked N- and C-terminally by coiled-coil helices. The N-terminal regions, the prefoldin domain, are found facing into the central cavity of the chaperone. Here exposed hydrophobic patches form an interaction with the substrate (an unfolded protein) [1].

The clan contains the following 3 members:

Prefoldin Prefoldin_2 Prefoldin_3

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...

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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
(53)
Full
(6454)
Representative proteomes UniProt
(12948)
RP15
(1311)
RP35
(3049)
RP55
(5139)
RP75
(6992)
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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
(53)
Full
(6454)
Representative proteomes UniProt
(12948)
RP15
(1311)
RP35
(3049)
RP55
(5139)
RP75
(6992)
Alignment:
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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
(53)
Full
(6454)
Representative proteomes UniProt
(12948)
RP15
(1311)
RP35
(3049)
RP55
(5139)
RP75
(6992)
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: Enright A
Previous IDs: KE2;
Type: Coiled-coil
Sequence Ontology: SO:0001080
Author: Enright A , Ouzounis C , Bateman A , Finn RD
Number in seed: 53
Number in full: 6454
Average length of the domain: 103.00 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 71.44 %

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 27.6 27.6
Trusted cut-off 27.6 27.6
Noise cut-off 27.5 27.5
Model length: 106
Family (HMM) version: 22
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 Prefoldin_2 domain has been found. There are 27 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
A0A0P0VIQ7 View 3D Structure Click here
A0A0R0G014 View 3D Structure Click here
A0A0R4J5B2 View 3D Structure Click here
A0A1D6F6R3 View 3D Structure Click here
A0A1D6H7X6 View 3D Structure Click here
A0A1D6HYT2 View 3D Structure Click here
A0A1D6QK93 View 3D Structure Click here
A0A1D8PF30 View 3D Structure Click here
A0A1D8PU06 View 3D Structure Click here
A4HSP1 View 3D Structure Click here
A4HTY8 View 3D Structure Click here
A4I1C4 View 3D Structure Click here
A4I5B6 View 3D Structure Click here
B0BN18 View 3D Structure Click here
B6TB46 View 3D Structure Click here
C4JBF9 View 3D Structure Click here
C6SW11 View 3D Structure Click here
C6SXC9 View 3D Structure Click here
D3ZX38 View 3D Structure Click here
F1R0Z8 View 3D Structure Click here
I1K1V3 View 3D Structure Click here
I1KFP3 View 3D Structure Click here
I1KQC4 View 3D Structure Click here
I1LBM5 View 3D Structure Click here
I1LYK6 View 3D Structure Click here
K7LSA3 View 3D Structure Click here
M0R5N4 View 3D Structure Click here
O14334 View 3D Structure Click here
O14450 View 3D Structure Click here
O15212 View 3D Structure Click here
O60925 View 3D Structure Click here
O70591 View 3D Structure Click here
P40005 View 3D Structure Click here
P46988 View 3D Structure Click here
P52553 View 3D Structure Click here
P52554 View 3D Structure Click here
P53900 View 3D Structure Click here
P59048 View 3D Structure Click here
Q03958 View 3D Structure Click here
Q0E2E9 View 3D Structure Click here
Q17435 View 3D Structure Click here
Q17827 View 3D Structure Click here
Q1JPY6 View 3D Structure Click here
Q2HIK4 View 3D Structure Click here
Q2QQS1 View 3D Structure Click here
Q2R2E8 View 3D Structure Click here
Q3UWL8 View 3D Structure Click here
Q4CTB4 View 3D Structure Click here
Q4D554 View 3D Structure Click here
Q4DCD5 View 3D Structure Click here
Q4DS55 View 3D Structure Click here
Q4E0R9 View 3D Structure Click here
Q4E3W6 View 3D Structure Click here
Q4E4M8 View 3D Structure Click here
Q53K63 View 3D Structure Click here
Q54JS0 View 3D Structure Click here
Q54M71 View 3D Structure Click here
Q54TB7 View 3D Structure Click here
Q55GN3 View 3D Structure Click here
Q566S5 View 3D Structure Click here
Q58063 View 3D Structure Click here
Q58394 View 3D Structure Click here
Q59VX1 View 3D Structure Click here
Q5A435 View 3D Structure Click here
Q5D016 View 3D Structure Click here
Q6MGC4 View 3D Structure Click here
Q7SX94 View 3D Structure Click here
Q8I3A4 View 3D Structure Click here
Q8I3Y6 View 3D Structure Click here
Q8ILS7 View 3D Structure Click here
Q8LD83 View 3D Structure Click here
Q94AF7 View 3D Structure Click here
Q9CWM4 View 3D Structure Click here
Q9LJ98 View 3D Structure Click here
Q9M4B5 View 3D Structure Click here
Q9N5M2 View 3D Structure Click here
Q9NQP4 View 3D Structure Click here
Q9NUG6 View 3D Structure Click here
Q9UHV9 View 3D Structure Click here
Q9UTC9 View 3D Structure Click here
Q9UTD4 View 3D Structure Click here
Q9VMH8 View 3D Structure Click here
Q9VRL3 View 3D Structure Click here
Q9VTE5 View 3D Structure Click here
Q9VW56 View 3D Structure Click here