SUPERFAMILY 1.75 HMM library and genome assignments server

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Ribonuclease Rh-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ribonuclease Rh-like [ 55894]
Superfamily:   Ribonuclease Rh-like [ 55895]
Families:   Ribonuclease Rh-like [ 55896] (8)


Superfamily statistics
Genomes (902) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 1,917 10,202 12
Proteins 1,884 10,160 12


Functional annotation
General category Information
Detailed category RNA processing

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.8302Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.05259Least InformativeInherited
Enzyme Commission (EC)Serine endopeptidases0.00001407Moderately InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.00004815Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.0004788Moderately InformativeDirect
Enzyme Commission (EC)Nucleoside-triphosphatase0.0000000001751InformativeDirect
Enzyme Commission (EC)RNA-directed RNA polymerase0.00000001353InformativeDirect
Enzyme Commission (EC)Pestivirus NS3 polyprotein peptidase0Highly InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing other than 5'-phosphom0Highly InformativeDirect

Document: EC annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups0.7789Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.04993Moderately InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.8148Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides1Moderately InformativeInherited
Enzyme Commission (EC)RNA-directed RNA polymerase0.0000000122InformativeDirect
Enzyme Commission (EC)RNA helicase0.000004364InformativeDirect
Enzyme Commission (EC)Serine endopeptidases0.00001319InformativeDirect
Enzyme Commission (EC)In phosphorus-containing anhydrides0.00004754InformativeDirect
Enzyme Commission (EC)Nucleoside-triphosphate phosphatase0.000000000191Highly InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR001568 SSF55895 Protein matches
Abstract

The fungal ribonucleases T2 from Aspergillus oryzae, M from Aspergillus saitoi and Rh from Rhizopus niveus are structurally and functionally related 30 Kd glycoproteins [PubMed2229029] that cleave the 3'-5' internucleotide linkage of RNA via a nucleotide 2',3'-cyclic phosphate intermediate .

Two histidines residues have been shown [PubMed2298207, PubMed1633875] 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.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 8 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Ribonuclease Rh-like domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 8 hidden Markov models representing the Ribonuclease Rh-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]