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EPT/RTPC-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   IF3-like [ 55199] (8)
Superfamily:   EPT/RTPC-like [ 55205] (2)
Families:   RNA 3'-terminal phosphate cyclase, RPTC [ 55206]
  Enolpyruvate transferase, EPT [ 55209] (2)


Superfamily statistics
Genomes (3,164) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 7,894 57,655 14
Proteins 7,550 56,204 13


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)Ligases1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydro-lyases0.008955Moderately InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.001493Moderately InformativeInherited
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.002834Moderately InformativeInherited
Enzyme Commission (EC)Acting on phosphates0InformativeDirect
Enzyme Commission (EC)Ligases that form phosphoric-ester bonds1InformativeInherited
Enzyme Commission (EC)Shikimate kinase0Highly InformativeDirect
Enzyme Commission (EC)Shikimate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)3-phosphoshikimate 1-carboxyvinyltransferase0Highly InformativeDirect
Enzyme Commission (EC)3-dehydroquinate synthase0Highly InformativeDirect
Enzyme Commission (EC)3-dehydroquinate dehydratase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.0006511Moderately InformativeDirect
Enzyme Commission (EC)Acting on the CH-OH group of donors0.001674Moderately InformativeInherited
Enzyme Commission (EC)Carbon-oxygen lyases0.3591Moderately InformativeInherited
Enzyme Commission (EC)Ligases1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0.0002191InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)Shikimate dehydrogenase0Highly InformativeDirect
Enzyme Commission (EC)Shikimate kinase0Highly InformativeDirect
Enzyme Commission (EC)3-dehydroquinate dehydratase0Highly InformativeDirect
Enzyme Commission (EC)3-dehydroquinate synthase0Highly InformativeDirect
Enzyme Commission (EC)Forming phosphoric ester bonds1Highly InformativeInherited

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR013792 SSF55205 Protein matches
Abstract

This entry represents an alpha/beta domain consisting of alternating beta-strands and alpha helices in two layer. This domain is found in RNA 3'-terminal phosphate cyclase (RPTC), where it occurs as a duplication of three repeats of this fold packed together around a pseudo three-fold axis [PubMed10673421]. RNA cyclases are a family of RNA-modifying enzymes that catalyse the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA. These cyclases contain an insert alpha/beta domain with a thioredoxin topology .

This domain is also found in enolpyruvate transferase, where it occurs as a duplication of six repeats of this fold organised into two RPTC-like domains [PubMed9485407, PubMed15995357]. Enolpyruvate transferase is the first enzyme in bacterial peptidoglycan biosynthesis, catalysing the transfer of enolpyruvate from phosphoenolpyruvate to UDP-N-acetyl-glucosamine.


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) · Yeast Phenotype (YP) · 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 21 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 EPT/RTPC-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 21 hidden Markov models representing the EPT/RTPC-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) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]