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0  structures 235  species 0  interactions 498  sequences 6  architectures

Family: Phtf-FEM1B_bdg (PF12129)

Summary: Male germ-cell putative homeodomain transcription factor

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Male germ-cell putative homeodomain transcription factor Provide feedback

This domain is found in bacteria and eukaryotes, and is typically between 101 and 140 amino acids in length. Phtf proteins do not display any sequence similarity to known or predicted proteins, but their conservation among species suggests an essential function. The 84 kDa Phtf1 protein is an integral membrane protein, anchored to a cell membrane by six to eight trans-membrane domains, that is associated with a domain of the endoplasmic reticulum (ER) juxtaposed to the Golgi apparatus. It is present during meiosis and spermiogenesis, and, by the end of spermiogenesis, is released from the mature spermatozoon within the residual bodies [1]. Phtf1 enhances the binding of FEM1B -feminisation homologue 1B - to cell membranes. Fem-1 was initially identified in the signaling pathway for sex determination, as well as being implicated in apoptosis, but its biochemical role is still unclear, and neither FEM1B nor PHTF1 is directly implicated in apoptosis in spermatogenesis. It is the ANK domain of FEM1B that is necessary for the interaction with the N-terminal region of Phtf1 [2].

Literature references

  1. Oyhenart J, Le Goffic R, Samson M, Jegou B, Raich N;, Biol Reprod. 2003;68:1044-1053.: Phtf1 is an integral membrane protein localized in an endoplasmic reticulum domain in maturing male germ cells. PUBMED:12604659 EPMC:12604659

  2. Oyhenart J, Benichou S, Raich N;, Biol Reprod. 2005;72:780-787.: Putative homeodomain transcription factor 1 interacts with the feminization factor homolog fem1b in male germ cells. PUBMED:15601915 EPMC:15601915


This tab holds annotation information from the InterPro database.

InterPro entry IPR021980

This domain is found in bacteria and eukaryotes, and is typically between 101 and 140 amino acids in length. Phtf proteins do not display any sequence similarity to known or predicted proteins, but their conservation among species suggests an essential function. The 84 kDa Phtf1 protein is an integral membrane protein, anchored to a cell membrane by six to eight trans-membrane domains, that is associated with a domain of the endoplasmic reticulum (ER) juxtaposed to the Golgi apparatus. It is present during meiosis and spermiogenesis, and, by the end of spermiogenesis, is released from the mature spermatozoon within the residual bodies [PUBMED:12604659]. Phtf1 enhances the binding of FEM1B -feminisation homologue 1B - to cell membranes. Fem-1 was initially identified in the signaling pathway for sex determination, as well as being implicated in apoptosis, but its biochemical role is still unclear, and neither FEM1B nor PHTF1 is directly implicated in apoptosis in spermatogenesis. It is the ANK domain of FEM1B that is necessary for the interaction with the N-terminal region of Phtf1 [PUBMED:15601915].

Domain organisation

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Alignments

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  Seed
(23)
Full
(498)
Representative proteomes UniProt
(810)
NCBI
(1516)
Meta
(0)
RP15
(82)
RP35
(170)
RP55
(310)
RP75
(372)
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Key: ✓ available, x not generated, not available.

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  Seed
(23)
Full
(498)
Representative proteomes UniProt
(810)
NCBI
(1516)
Meta
(0)
RP15
(82)
RP35
(170)
RP55
(310)
RP75
(372)
Alignment:
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  Seed
(23)
Full
(498)
Representative proteomes UniProt
(810)
NCBI
(1516)
Meta
(0)
RP15
(82)
RP35
(170)
RP55
(310)
RP75
(372)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download    
Gzipped Download   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

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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

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Curation View help on the curation process

Seed source: PFAM-B_2140 (release 23.0)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Assefa S
Number in seed: 23
Number in full: 498
Average length of the domain: 135.80 aa
Average identity of full alignment: 52 %
Average coverage of the sequence by the domain: 19.56 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 21.1 21.1
Trusted cut-off 21.3 21.4
Noise cut-off 20.4 20.5
Model length: 154
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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