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0  structures 143  species 0  interactions 284  sequences 28  architectures

Family: MKRN1_C (PF15815)

Summary: E3 ubiquitin-protein ligase makorin, C-terminal

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E3 ubiquitin-protein ligase makorin, C-terminal Provide feedback

MKRN1_C is the very C-terminus of E3 ubiquitin-protein ligase makorin-1, or MKRN1, a family of eukaryotic putative ribonucleoproteins with a distinctive array of zinc-finger motifs [1]. MKRN1 plays an important role in modulating the homeostasis of telomere-length through a dynamic balance involving the stability of the protein hTERT [2]. MKRN1 has been shown to be a a transcriptional co-regulator and an E3 ligase. It functions simultaneously as a differentially negative regulator of p53 and p21, preferentially leading cells to p53-dependent apoptosis by suppressing p21 [3]. The exact function of the C-terminal region has not been determined.

Literature references

  1. Gray TA, Hernandez L, Carey AH, Schaldach MA, Smithwick MJ, Rus K, Marshall Graves JA, Stewart CL, Nicholls RD;, Genomics. 2000;66:76-86.: The ancient source of a distinct gene family encoding proteins featuring RING and C(3)H zinc-finger motifs with abundant expression in developing brain and nervous system. PUBMED:10843807 EPMC:10843807

  2. Kim JH, Park SM, Kang MR, Oh SY, Lee TH, Muller MT, Chung IK;, Genes Dev. 2005;19:776-781.: Ubiquitin ligase MKRN1 modulates telomere length homeostasis through a proteolysis of hTERT. PUBMED:15805468 EPMC:15805468

  3. Lee EW, Lee MS, Camus S, Ghim J, Yang MR, Oh W, Ha NC, Lane DP, Song J;, EMBO J. 2009;28:2100-2113.: Differential regulation of p53 and p21 by MKRN1 E3 ligase controls cell cycle arrest and apoptosis. PUBMED:19536131 EPMC:19536131


This tab holds annotation information from the InterPro database.

InterPro entry IPR031644

This domain is found at the C terminus of makorins, a family of eukaryotic putative ribonucleoproteins with a distinctive array of zinc-finger motifs [PUBMED:10843807]. Makorin-1 (MKRN1) plays an important role in modulating the homeostasis of telomere-length through a dynamic balance involving the stability of the protein hTERT [PUBMED:15805468]. MKRN1 has been shown to be a a transcriptional co-regulator and an E3 ligase. It functions simultaneously as a differentially negative regulator of p53 and p21, preferentially leading cells to p53-dependent apoptosis by suppressing p21 [PUBMED:19536131]. The exact function of the C-terminal region has not been determined.

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, 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
(23)
Full
(284)
Representative proteomes UniProt
(418)
NCBI
(746)
Meta
(0)
RP15
(12)
RP35
(50)
RP55
(146)
RP75
(256)
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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
(23)
Full
(284)
Representative proteomes UniProt
(418)
NCBI
(746)
Meta
(0)
RP15
(12)
RP35
(50)
RP55
(146)
RP75
(256)
Alignment:
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Sequence:
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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
(23)
Full
(284)
Representative proteomes UniProt
(418)
NCBI
(746)
Meta
(0)
RP15
(12)
RP35
(50)
RP55
(146)
RP75
(256)
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

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.

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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: Jackhmmer:Q6NVV0
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Coggill P
Number in seed: 23
Number in full: 284
Average length of the domain: 86.90 aa
Average identity of full alignment: 62 %
Average coverage of the sequence by the domain: 19.66 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 25.0 25.0
Trusted cut-off 25.2 27.1
Noise cut-off 21.9 20.6
Model length: 91
Family (HMM) version: 6
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

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