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10  structures 1390  species 0  interactions 1803  sequences 25  architectures

Family: Prp31_C (PF09785)

Summary: Prp31 C terminal domain

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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.

Prp31 C terminal domain Provide feedback

This is the C terminal domain of the pre-mRNA processing factor Prp31. Prp31 is required for U4/U6.U5 tri-snRNP formation [2]. In humans this protein has been linked to autosomal dominant retinitis pigmentosa [2].

Literature references

  1. Weidenhammer EM, Singh M, Ruiz-Noriega M, Woolford JL Jr; , Nucleic Acids Res. 1996;24:1164-1170.: The PRP31 gene encodes a novel protein required for pre-mRNA splicing in Saccharomyces cerevisiae. PUBMED:8604353 EPMC:8604353

  2. Makarova OV, Makarov EM, Liu S, Vornlocher HP, Luhrmann R; , EMBO J. 2002;21:1148-1157.: Protein 61K, encoded by a gene (PRPF31) linked to autosomal dominant retinitis pigmentosa, is required for U4/U6*U5 tri-snRNP formation and pre-mRNA splicing. PUBMED:11867543 EPMC:11867543

  3. Deery EC, Vithana EN, Newbold RJ, Gallon VA, Bhattacharya SS, Warren MJ, Hunt DM, Wilkie SE; , Hum Mol Genet. 2002;11:3209-3219.: Disease mechanism for retinitis pigmentosa (RP11) caused by mutations in the splicing factor gene PRPF31. PUBMED:12444105 EPMC:12444105


This tab holds annotation information from the InterPro database.

InterPro entry IPR019175

This is the C-terminal domain of the pre-mRNA processing factor Prp31. Prp31 is required for U4/U6*U5 tri-snRNP formation [ PUBMED:11867543 ]. In humans this protein has been linked to autosomal dominant retinitis pigmentosa [ PUBMED:11867543 , PUBMED:12444105 ].

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
(85)
Full
(1803)
Representative proteomes UniProt
(2766)
RP15
(379)
RP35
(831)
RP55
(1378)
RP75
(1859)
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
(85)
Full
(1803)
Representative proteomes UniProt
(2766)
RP15
(379)
RP35
(831)
RP55
(1378)
RP75
(1859)
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
(85)
Full
(1803)
Representative proteomes UniProt
(2766)
RP15
(379)
RP35
(831)
RP55
(1378)
RP75
(1859)
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_7665 (release 21.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Mistry J , Wood V
Number in seed: 85
Number in full: 1803
Average length of the domain: 127 aa
Average identity of full alignment: 46 %
Average coverage of the sequence by the domain: 24.71 %

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 25.2 25.2
Trusted cut-off 25.4 25.2
Noise cut-off 24.7 25.0
Model length: 124
Family (HMM) version: 12
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 Prp31_C domain has been found. There are 10 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
A0A044ULZ3 View 3D Structure Click here
A0A077Z4E6 View 3D Structure Click here
A0A0D2GNY2 View 3D Structure Click here
A0A0K0EID5 View 3D Structure Click here
A0A0K0IZP0 View 3D Structure Click here
A0A0N4U820 View 3D Structure Click here
A0A0P0VPC8 View 3D Structure Click here
A0A175VSC5 View 3D Structure Click here
A0A1C1CUZ0 View 3D Structure Click here
A0A1D6Q9M2 View 3D Structure Click here
A0A1D8PHQ5 View 3D Structure Click here
A0A5K4FFZ8 View 3D Structure Click here
B4FHA5 View 3D Structure Click here
C0H4A0 View 3D Structure Click here
C0NJD3 View 3D Structure Click here
C1GWF9 View 3D Structure Click here
C7G068 View 3D Structure Click here
D3ZI68 View 3D Structure Click here
G4LW82 View 3D Structure Click here
I1MLN7 View 3D Structure Click here
I1N7K6 View 3D Structure Click here
J9B6T8 View 3D Structure Click here
O42904 View 3D Structure Click here
P49704 View 3D Structure Click here
Q6NVP6 View 3D Structure Click here
Q7SXM7 View 3D Structure Click here
Q7XU07 View 3D Structure Click here
Q8CCF0 View 3D Structure Click here
Q8H4L0 View 3D Structure Click here
Q8RXN6 View 3D Structure Click here
Q8WWY3 View 3D Structure Click here
Q9N592 View 3D Structure Click here
Q9VUM1 View 3D Structure Click here
U7Q244 View 3D Structure Click here