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0  structures 301  species 0  interactions 359  sequences 5  architectures

Family: Bystin (PF05291)

Summary: Bystin

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Bystin Provide feedback

Trophinin and tastin form a cell adhesion molecule complex that potentially mediates an initial attachment of the blastocyst to uterine epithelial cells at the time of implantation. Trophinin and tastin bind to an intermediary cytoplasmic protein called bystin. Bystin may be involved in implantation and trophoblast invasion because bystin is found with trophinin and tastin in the cells at human implantation sites and also in the intermediate trophoblasts at invasion front in the placenta from early pregnancy [1]. This family also includes the yeast protein ENP1. ENP1 is an essential protein in Saccharomyces cerevisiae and is localised in the nucleus [2]. It is thought that ENP1 plays a direct role in the early steps of rRNA processing as enp1 defective yeast cannot synthesise 20S pre-rRNA and hence 18S rRNA, which leads to reduced formation of 40S ribosomal subunits [3].

Literature references

  1. Suzuki N, Zara J, Sato T, Ong E, Bakhiet N, Oshima RG, Watson KL, Fukuda MN; , Proc Natl Acad Sci U S A 1998;95:5027-5032.: A cytoplasmic protein, bystin, interacts with trophinin, tastin, and cytokeratin and may be involved in trophinin-mediated cell adhesion between trophoblast and endometrial epithelial cells. PUBMED:9560222 EPMC:9560222

  2. Roos J, Luz JM, Centoducati S, Sternglanz R, Lennarz WJ; , Gene 1997;185:137-146.: ENP1, an essential gene encoding a nuclear protein that is highly conserved from yeast to humans. PUBMED:9034325 EPMC:9034325

  3. Chen W, Bucaria J, Band DA, Sutton A, Sternglanz R; , Nucleic Acids Res 2003;31:690-699.: Enp1, a yeast protein associated with U3 and U14 snoRNAs, is required for pre-rRNA processing and 40S subunit synthesis. PUBMED:12527778 EPMC:12527778


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR007955

Trophinin and tastin form a cell adhesion molecule complex that potentially mediates an initial attachment of the blastocyst to uterine epithelial cells at the time of implantation. Trophinin and tastin bind to an intermediary cytoplasmic protein called bystin. Bystin may be involved in implantation and trophoblast invasion because bystin is found with trophinin and tastin in the cells at human implantation sites and also in the intermediate trophoblasts at invasion front in the placenta from early pregnancy [PUBMED:9560222]. This family also includes the Saccharomyces cerevisiae protein ENP1. ENP1 is an essential protein in S. cerevisiae and is localised in the nucleus [PUBMED:9034325]. It is thought that ENP1 plays a direct role in the early steps of rRNA processing as enp1 defective S. cerevisiae cannot synthesise 20S pre-rRNA and hence 18S rRNA, which leads to reduced formation of 40S ribosomal subunits [PUBMED:12527778].

Domain organisation

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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 using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics 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
(21)
Full
(359)
Representative proteomes NCBI
(363)
Meta
(3)
RP15
(92)
RP35
(141)
RP55
(208)
RP75
(250)
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  Seed
(21)
Full
(359)
Representative proteomes NCBI
(363)
Meta
(3)
RP15
(92)
RP35
(141)
RP55
(208)
RP75
(250)
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
(21)
Full
(359)
Representative proteomes NCBI
(363)
Meta
(3)
RP15
(92)
RP35
(141)
RP55
(208)
RP75
(250)
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You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

HMM logo

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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.

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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_7767 (release 7.7)
Previous IDs: none
Type: Family
Author: Moxon SJ, Wood V
Number in seed: 21
Number in full: 359
Average length of the domain: 287.10 aa
Average identity of full alignment: 46 %
Average coverage of the sequence by the domain: 68.65 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 28.0 28.0
Trusted cut-off 28.2 30.2
Noise cut-off 27.9 27.9
Model length: 302
Family (HMM) version: 6
Download: download the raw HMM for this family

Species distribution

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