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0  structures 1341  species 0  interactions 4225  sequences 61  architectures

Family: PRA1 (PF03208)

Summary: PRA1 family protein

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.

PRA1 family protein Provide feedback

This family includes the PRA1 (Prenylated rab acceptor) protein which is a Rab guanine dissociation inhibitor (GDI) displacement factor [2]. This family also includes the glutamate transporter EAAC1 interacting protein GTRAP3-18 [3].

Literature references

  1. Bucci C, Chiariello M, Lattero D, Maiorano M, Bruni CB; , Biochem Biophys Res Commun 1999;258:657-662.: Interaction cloning and characterization of the cDNA encoding the human prenylated rab acceptor (PRA1). PUBMED:10329441 EPMC:10329441

  2. Sivars U, Aivazian D, Pfeffer S; , Methods Enzymol. 2005;403:348-356.: Purification and properties of Yip3/PRA1 as a Rab GDI displacement factor. PUBMED:16473601 EPMC:16473601

  3. Lin CI, Orlov I, Ruggiero AM, Dykes-Hoberg M, Lee A, Jackson M, Rothstein JD; , Nature 2001;410:84-88.: Modulation of the neuronal glutamate transporter EAAC1 by the interacting protein GTRAP3-18. PUBMED:11242046 EPMC:11242046


This tab holds annotation information from the InterPro database.

InterPro entry IPR004895

Prenylated Rab acceptor protein 1 (PRA1) family includes PRAF1/2/3 from mammals, Yip3 from budding yeasts and several PRA proteins from plants.

In budding yeast, Yip3 interacts with members of the Rab GTPase family and may be involved in transport between the ER and Golgi complex [ PUBMED:11157978 ].

In humans, PRAF1 is a general Rab protein regulator required for vesicle formation from the Golgi complex. It may control vesicle docking and fusion by mediating the action of Rab GTPases to the SNARE complexes [ PUBMED:12107180 ]. It inhibits the removal of Rab GTPases from the membrane by GDI [ PUBMED:10751420 ]. PRAF2 plays a pro-apoptotic role in cerulenin-induced neuroblastoma apoptosis [ PUBMED:17975142 ]. PRAF3 negatively modulates SLC1A1/EAAC1 glutamate transport activity by decreasing its affinity for glutamate [ PUBMED:12119102 ].

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
(168)
Full
(4225)
Representative proteomes UniProt
(7302)
RP15
(630)
RP35
(2083)
RP55
(3418)
RP75
(4561)
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
(168)
Full
(4225)
Representative proteomes UniProt
(7302)
RP15
(630)
RP35
(2083)
RP55
(3418)
RP75
(4561)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(168)
Full
(4225)
Representative proteomes UniProt
(7302)
RP15
(630)
RP35
(2083)
RP55
(3418)
RP75
(4561)
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_2976 (release 6.5) & Pfam-B_8147 (Release 8.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Mifsud W , Bateman A
Number in seed: 168
Number in full: 4225
Average length of the domain: 138.30 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 63.58 %

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 30.1 30.1
Trusted cut-off 30.1 30.1
Noise cut-off 30.0 30.0
Model length: 143
Family (HMM) version: 21
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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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
A0A096T1S9 View 3D Structure Click here
A0A0P0W2T6 View 3D Structure Click here
A0A0R0EU57 View 3D Structure Click here
A0A0R0F3X7 View 3D Structure Click here
A0A0R0GL62 View 3D Structure Click here
A0A1D6GHY1 View 3D Structure Click here
A0A1D6M083 View 3D Structure Click here
A0A1D6N759 View 3D Structure Click here
A0A1D6QG97 View 3D Structure Click here
A0A1D6QG97 View 3D Structure Click here
A0A1D8PDT9 View 3D Structure Click here
A1Z823 View 3D Structure Click here
A4I924 View 3D Structure Click here
A8WHN4 View 3D Structure Click here
B4FCM4 View 3D Structure Click here
B4FP31 View 3D Structure Click here
B4FZ09 View 3D Structure Click here
B4G0F8 View 3D Structure Click here
B6SKT9 View 3D Structure Click here
B6SMB4 View 3D Structure Click here
B6STH8 View 3D Structure Click here
B6T3J9 View 3D Structure Click here
B6TAR3 View 3D Structure Click here
B7E4Q0 View 3D Structure Click here
B7FAB9 View 3D Structure Click here
C6T2N0 View 3D Structure Click here
C6T337 View 3D Structure Click here
C6TMF0 View 3D Structure Click here
E9AHN5 View 3D Structure Click here
F1RC66 View 3D Structure Click here
F4JGU4 View 3D Structure Click here
H2KZJ7 View 3D Structure Click here
I1J7I4 View 3D Structure Click here
I1JF38 View 3D Structure Click here
I1JIC8 View 3D Structure Click here
I1JL58 View 3D Structure Click here
I1JP02 View 3D Structure Click here
I1KGD8 View 3D Structure Click here
I1KKK8 View 3D Structure Click here
I1KUV3 View 3D Structure Click here
I1L641 View 3D Structure Click here
I1L9J0 View 3D Structure Click here
I1LBM6 View 3D Structure Click here
I1LC48 View 3D Structure Click here
I1M348 View 3D Structure Click here
I1M5D1 View 3D Structure Click here
I1N9N4 View 3D Structure Click here
I1NIR2 View 3D Structure Click here
K7K122 View 3D Structure Click here
K7KWF3 View 3D Structure Click here
K7L1F1 View 3D Structure Click here
K7LFV2 View 3D Structure Click here
K7LH67 View 3D Structure Click here
K7MMH4 View 3D Structure Click here
K7MTA5 View 3D Structure Click here
K7MTP1 View 3D Structure Click here
O35394 View 3D Structure Click here
O60831 View 3D Structure Click here
O75915 View 3D Structure Click here
O80915 View 3D Structure Click here
P53633 View 3D Structure Click here
P93829 View 3D Structure Click here
Q0JI34 View 3D Structure Click here
Q1G3K7 View 3D Structure Click here
Q2QYS7 View 3D Structure Click here
Q2RBL4 View 3D Structure Click here
Q4CMX6 View 3D Structure Click here
Q4CWS9 View 3D Structure Click here
Q4D2F3 View 3D Structure Click here
Q4DBL2 View 3D Structure Click here
Q4DGY3 View 3D Structure Click here
Q4DGY5 View 3D Structure Click here
Q54NS7 View 3D Structure Click here
Q54XK1 View 3D Structure Click here
Q5N791 View 3D Structure Click here
Q5XJS6 View 3D Structure Click here
Q65WW5 View 3D Structure Click here
Q6DGQ9 View 3D Structure Click here
Q6L4R1 View 3D Structure Click here
Q6YTW2 View 3D Structure Click here
Q7Y1J0 View 3D Structure Click here
Q8GWC3 View 3D Structure Click here
Q8LFP1 View 3D Structure Click here
Q8R5J9 View 3D Structure Click here
Q8W115 View 3D Structure Click here
Q9C889 View 3D Structure Click here
Q9ES40 View 3D Structure Click here
Q9FH16 View 3D Structure Click here
Q9FLB6 View 3D Structure Click here
Q9FRR1 View 3D Structure Click here
Q9FZ63 View 3D Structure Click here
Q9JIG8 View 3D Structure Click here
Q9LIC6 View 3D Structure Click here
Q9LIC7 View 3D Structure Click here
Q9LYN0 View 3D Structure Click here
Q9LYQ4 View 3D Structure Click here
Q9LZM7 View 3D Structure Click here
Q9M012 View 3D Structure Click here
Q9SIY7 View 3D Structure Click here
Q9UI14 View 3D Structure Click here
Q9UUN5 View 3D Structure Click here
Q9VJ59 View 3D Structure Click here
Q9Z0S9 View 3D Structure Click here
Q9ZWD1 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;