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1224  structures 8664  species 0  interactions 12248  sequences 92  architectures

Family: Ribosomal_S10 (PF00338)

Summary: Ribosomal protein S10p/S20e

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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 protein S10p/S20e Provide feedback

This family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR027486

Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA [ PUBMED:9281425 ]. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins.

The small ribosomal subunit protein S10 consists of about 100 amino acid residues. In Escherichia coli, S10 is involved in binding tRNA to the ribosome, and also operates as a transcriptional elongation factor [ PUBMED:8021936 ]. Experimental evidence [ PUBMED:9371771 ] has revealed that S10 has virtually no groups exposed on the ribosomal surface, and is one of the "split proteins": these are a discrete group that are selectively removed from 30S subunits under low salt conditions and are required for the formation of activated 30S reconstitution intermediate (RI*) particles. S10 belongs to a family of proteins [ PUBMED:2179947 ] that includes: bacteria S10; algal chloroplast S10; cyanelle S10; archaebacterial S10; Marchantia polymorpha and Prototheca wickerhamii mitochondrial S10; Arabidopsis thaliana mitochondrial S10 (nuclear encoded); vertebrate S20; plant S20; and yeast URP2.

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
(346)
Full
(12248)
Representative proteomes UniProt
(43572)
RP15
(1980)
RP35
(5995)
RP55
(11571)
RP75
(18464)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(346)
Full
(12248)
Representative proteomes UniProt
(43572)
RP15
(1980)
RP35
(5995)
RP55
(11571)
RP75
(18464)
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
(346)
Full
(12248)
Representative proteomes UniProt
(43572)
RP15
(1980)
RP35
(5995)
RP55
(11571)
RP75
(18464)
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: Prosite
Previous IDs: S10;
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , Finn RD
Number in seed: 346
Number in full: 12248
Average length of the domain: 93.90 aa
Average identity of full alignment: 44 %
Average coverage of the sequence by the domain: 70.29 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 21.2 21.2
Trusted cut-off 21.2 21.3
Noise cut-off 21.0 20.8
Model length: 98
Family (HMM) version: 24
Download: download the raw HMM for this family

Species distribution

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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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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_S10 domain has been found. There are 1224 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
A0A0G2JY70 View 3D Structure Click here
A0A0G2K3E9 View 3D Structure Click here
A0A0G2K632 View 3D Structure Click here
A0A0G2K6L6 View 3D Structure Click here
A0A0G2K8W1 View 3D Structure Click here
A0A0R0FF68 View 3D Structure Click here
A0A0R0H8T0 View 3D Structure Click here
A0A0R0KR16 View 3D Structure Click here
A0A0R0LFT0 View 3D Structure Click here
A0A144A524 View 3D Structure Click here
A0A1D6JSF1 View 3D Structure Click here
A0A1D6JW41 View 3D Structure Click here
A0A1D6MYF7 View 3D Structure Click here
A0A1D6NVZ3 View 3D Structure Click here
A0A1D6NVZ3 View 3D Structure Click here
A0A1D6PID0 View 3D Structure Click here
B6T7T8 View 3D Structure Click here
C6SY25 View 3D Structure Click here
C6SYS4 View 3D Structure Click here
C6T0U3 View 3D Structure Click here
D3ZDX7 View 3D Structure Click here
D3ZZK1 View 3D Structure Click here
E9AHH9 View 3D Structure Click here
F1QEF5 View 3D Structure Click here
I1KG35 View 3D Structure Click here
I1LFQ4 View 3D Structure Click here
I1M7C7 View 3D Structure Click here
I1N0C3 View 3D Structure Click here
I1N954 View 3D Structure Click here
K7L0H7 View 3D Structure Click here
M0R566 View 3D Structure Click here
M0R5V6 View 3D Structure Click here
M0R987 View 3D Structure Click here
M0RB28 View 3D Structure Click here
M1FPG3 View 3D Structure Click here
O44159 View 3D Structure Click here
O60186 View 3D Structure Click here
O74893 View 3D Structure Click here
P0A7R5 View 3D Structure Click here
P35686 View 3D Structure Click here
P38701 View 3D Structure Click here
P42797 View 3D Structure Click here
P49200 View 3D Structure Click here
P54029 View 3D Structure Click here
P55828 View 3D Structure Click here
P60866 View 3D Structure Click here
P60867 View 3D Structure Click here
P60868 View 3D Structure Click here
P82664 View 3D Structure Click here
P9WH67 View 3D Structure Click here
Q03201 View 3D Structure Click here
Q08068 View 3D Structure Click here
Q10P27 View 3D Structure Click here
Q10QH0 View 3D Structure Click here
Q4D6H7 View 3D Structure Click here
Q54WA4 View 3D Structure Click here
Q54Y41 View 3D Structure Click here
Q5A389 View 3D Structure Click here
Q5ADT9 View 3D Structure Click here
Q5SPH9 View 3D Structure Click here
Q7TQ82 View 3D Structure Click here
Q80ZK0 View 3D Structure Click here
Q8IK02 View 3D Structure Click here
Q8IKM3 View 3D Structure Click here
Q8JZS9 View 3D Structure Click here
Q8LNL2 View 3D Structure Click here
Q8WQA8 View 3D Structure Click here
Q96GC5 View 3D Structure Click here
Q9FUT8 View 3D Structure Click here
Q9LK61 View 3D Structure Click here
Q9LRH5 View 3D Structure Click here
Q9STY6 View 3D Structure Click here
Q9VFB2 View 3D Structure Click here
Q9VQ35 View 3D Structure Click here
Q9XWV5 View 3D Structure Click here