Summary: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
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Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A Provide feedback
This family includes: archaeal 50S ribosomal protein L18Ae, often referred to as L20e or LX; fungal 60S ribosomal protein L20; and higher eukaryote 60S ribosomal protein L18A.
Literature references
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Ramirez C, Louie KA, Matheson AT; , FEBS Lett 1991;284:39-41.: A small basic ribosomal protein from the extreme thermophilic archaebacterium Sulfolobus solfataricus that has no equivalent in Escherichia coli. PUBMED:1711982 EPMC:1711982
This tab holds annotation information from the InterPro database.
InterPro entry IPR023573
This entry includes the eukaryotic 60S ribosomal protein L18ae [PUBMED:1840484] the archaea 50S ribosomal protein LX and higher eukaryote 60S ribosomal protein L18A. Rat ribosomal protein L18 is homologous to Xenopus laevis L14 [PUBMED:3371159].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Cellular component | ribosome (GO:0005840) |
Molecular function | structural constituent of ribosome (GO:0003735) |
Biological process | translation (GO:0006412) |
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, 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 (60) |
Full (2044) |
Representative proteomes | UniProt (4246) |
NCBI (4027) |
Meta (46) |
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RP15 (296) |
RP35 (799) |
RP55 (1245) |
RP75 (1752) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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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 (60) |
Full (2044) |
Representative proteomes | UniProt (4246) |
NCBI (4027) |
Meta (46) |
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RP15 (296) |
RP35 (799) |
RP55 (1245) |
RP75 (1752) |
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Raw Stockholm | |||||||||
Gzipped |
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
Seed source: | PSI-BLAST Q02543 |
Previous IDs: | Ribosomal_L18ae; |
Type: | Domain |
Sequence Ontology: | SO:0000417 |
Author: |
Bateman A |
Number in seed: | 60 |
Number in full: | 2044 |
Average length of the domain: | 108.70 aa |
Average identity of full alignment: | 52 % |
Average coverage of the sequence by the domain: | 62.84 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 121 | ||||||||||||
Family (HMM) version: | 18 | ||||||||||||
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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Interactions
There are 26 interactions for this family. More...
Ribosomal_L30 ubiquitin Ribosomal_L30_N Ribosomal_L18p Ribosomal_L38e Ribosomal_L14e Ribosomal_L27A Ribosomal_60s Ribosomal_L6 Ribosomal_L40e Ribosomal_L19e Ribosomal_60s Ribosomal_L16 Ribosomal_L10 Ribosomal_L2 Ribosomal_L10 Ribosomal_L40e Ribosomal_L30_N Ribosomal_L29 ubiquitin Peptidase_M24 Ribosomal_L24e Ribosomal_L11 KOW Ribosomal_L34e Ribosomal_L36eStructures
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 Ribosomal_L18A domain has been found. There are 175 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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