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29  structures 2359  species 0  interactions 5298  sequences 99  architectures

Family: Ribonuclease_T2 (PF00445)

Summary: Ribonuclease T2 family

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Ribonuclease T2 family Provide feedback

No Pfam abstract.

Literature references

  1. Kurihara H, Nonaka T, Mitsui Y, Ohgi K, Irie M, Nakamura KT; , J Mol Biol 1996;255:310-320.: The crystal structure of ribonuclease Rh from Rhizopus niveus at 2.0 A resolution. PUBMED:8551522 EPMC:8551522


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001568

The fungal ribonucleases T2 from Aspergillus oryzae, M from Aspergillus saitoi and Rh from Rhizopus niveus are structurally and functionally related 30 Kd glycoproteins [ PUBMED:2229029 ] that cleave the 3'-5' internucleotide linkage of RNA via a nucleotide 2',3'-cyclic phosphate intermediate ( EC ). Two histidines residues have been shown [ PUBMED:2298207 , PUBMED:1633875 ] to be involved in the catalytic mechanism of RNase T2 and Rh. These residues and the region around them are highly conserved in a number of other RNAses that have been found to be evolutionary related to these fungal enzymes.

Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases) [ PUBMED:12109772 , PUBMED:11582795 , PUBMED:10446375 , PUBMED:12731868 , PUBMED:11158587 ]. Plant T2 RNases are expressed during leaf senescence in order to scavenge phosphate from ribonucleotides. They are also expressed in response to wounding or pathogen invasion. S-RNases are thought to prevent self-fertilization by acting as selective cytotoxins of "self" pollen. Generally, RNases have two distinct binding sites: the primary site (B1 site) and the subsite (B2 site), for nucleotides located at the 5'- and 3'- terminal ends of the sissile bond, respectively.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

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
(200)
Full
(5298)
Representative proteomes UniProt
(15787)
RP15
(706)
RP35
(2521)
RP55
(4545)
RP75
(6709)
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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
(200)
Full
(5298)
Representative proteomes UniProt
(15787)
RP15
(706)
RP35
(2521)
RP55
(4545)
RP75
(6709)
Alignment:
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Sequence:
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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
(200)
Full
(5298)
Representative proteomes UniProt
(15787)
RP15
(706)
RP35
(2521)
RP55
(4545)
RP75
(6709)
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: ribonuclease_T2;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD
Number in seed: 200
Number in full: 5298
Average length of the domain: 173.40 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 61.83 %

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 20.7 20.7
Trusted cut-off 20.9 20.7
Noise cut-off 20.6 20.6
Model length: 186
Family (HMM) version: 20
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 Ribonuclease_T2 domain has been found. There are 29 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
A0A0G2K9L0 View 3D Structure Click here
A0A0G2K9L0 View 3D Structure Click here
A0A0N7KNW6 View 3D Structure Click here
A0A0P0X972 View 3D Structure Click here
A0A0R0FKK8 View 3D Structure Click here
A0A0R0J0J8 View 3D Structure Click here
A0A0R0KLN7 View 3D Structure Click here
A0A0R0L0S6 View 3D Structure Click here
A0A0R0LE13 View 3D Structure Click here
A0A1D6IKH3 View 3D Structure Click here
A0A1D6N4Q0 View 3D Structure Click here
A0A1D6N4Q6 View 3D Structure Click here
A0A1D8PLR0 View 3D Structure Click here
A0A2R8Q693 View 3D Structure Click here
B4FBD6 View 3D Structure Click here
B6SSH9 View 3D Structure Click here
B7EZ16 View 3D Structure Click here
B8XY56 View 3D Structure Click here
C0HKG5 View 3D Structure Click here
C0HKG6 View 3D Structure Click here
C6SW07 View 3D Structure Click here
C6SZF6 View 3D Structure Click here
C6T3S4 View 3D Structure Click here
C7FZY2 View 3D Structure Click here
F1R673 View 3D Structure Click here
F4HUG9 View 3D Structure Click here
I1J5R4 View 3D Structure Click here
I1JCX4 View 3D Structure Click here
I1JCX5 View 3D Structure Click here
I1JCX6 View 3D Structure Click here
I1JE49 View 3D Structure Click here
O00584 View 3D Structure Click here
O61887 View 3D Structure Click here
P21338 View 3D Structure Click here
P42813 View 3D Structure Click here
P42814 View 3D Structure Click here
P42815 View 3D Structure Click here
Q02933 View 3D Structure Click here
Q54Y46 View 3D Structure Click here
Q5AK94 View 3D Structure Click here
Q5AKB1 View 3D Structure Click here
Q5N865 View 3D Structure Click here
Q69JF4 View 3D Structure Click here
Q69JX7 View 3D Structure Click here
Q7M438 View 3D Structure Click here
Q8H4E4 View 3D Structure Click here
Q9FEG7 View 3D Structure Click here
Q9VSC3 View 3D Structure Click here
Q9XI64 View 3D Structure Click here