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306  structures 1472  species 0  interactions 2264  sequences 56  architectures

Family: Ribosomal_S17_N (PF16205)

Summary: Ribosomal_S17 N-terminal

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.

Ribosomal_S17 N-terminal Provide feedback

This short N-terminal region is found in a number of higher eukaryotic ribosomal subunit 17 proteins.

This tab holds annotation information from the InterPro database.

InterPro entry IPR032440

This short N-terminal region is found in a number of eukaryotic ribosomal subunit 11 proteins [ PUBMED:8093055 ].

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
(62)
Full
(2264)
Representative proteomes UniProt
(3741)
RP15
(454)
RP35
(1045)
RP55
(1751)
RP75
(2310)
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
(62)
Full
(2264)
Representative proteomes UniProt
(3741)
RP15
(454)
RP35
(1045)
RP55
(1751)
RP75
(2310)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(62)
Full
(2264)
Representative proteomes UniProt
(3741)
RP15
(454)
RP35
(1045)
RP55
(1751)
RP75
(2310)
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: Phmmer:P62280
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Coggill P
Number in seed: 62
Number in full: 2264
Average length of the domain: 64.9 aa
Average identity of full alignment: 63 %
Average coverage of the sequence by the domain: 37.82 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.0 27.0
Trusted cut-off 27.2 27.2
Noise cut-off 26.1 26.7
Model length: 67
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

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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Tree controls

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The tree shows the occurrence of this domain across different species. More...

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Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Structures

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_S17_N domain has been found. There are 306 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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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
A0A044SLK0 View 3D Structure Click here
A0A077Z535 View 3D Structure Click here
A0A077ZMX0 View 3D Structure Click here
A0A0D2GPH8 View 3D Structure Click here
A0A0J9XUF9 View 3D Structure Click here
A0A0K0EDK0 View 3D Structure Click here
A0A0N4UHL8 View 3D Structure Click here
A0A175W9F2 View 3D Structure Click here
A0A1C1D0M3 View 3D Structure Click here
A0A1D6E6T5 View 3D Structure Click here
A0A1D6KJS6 View 3D Structure Click here
A0A1D8PN83 View 3D Structure Click here
A0A2R8QJZ5 View 3D Structure Click here
A4HYZ5 View 3D Structure Click here
B0BND7 View 3D Structure Click here
C0NYM4 View 3D Structure Click here
C1H6H6 View 3D Structure Click here
C6T065 View 3D Structure Click here
D3ZYK5 View 3D Structure Click here
G4VDH7 View 3D Structure Click here
I1MU00 View 3D Structure Click here
K7K318 View 3D Structure Click here
K7LCS7 View 3D Structure Click here
O65569 View 3D Structure Click here
O77381 View 3D Structure Click here
P0CT73 View 3D Structure Click here
P0CT74 View 3D Structure Click here
P0CX47 View 3D Structure Click here
P0CX48 View 3D Structure Click here
P16181 View 3D Structure Click here
P17093 View 3D Structure Click here
P25460 View 3D Structure Click here
P42733 View 3D Structure Click here
P52812 View 3D Structure Click here
P61270 View 3D Structure Click here
P62280 View 3D Structure Click here
P62281 View 3D Structure Click here
P62282 View 3D Structure Click here
Q0E9B6 View 3D Structure Click here
Q0JA68 View 3D Structure Click here