SUPERFAMILY 1.75 HMM library and genome assignments server


Functional domain of the splicing factor Prp18 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Functional domain of the splicing factor Prp18 [ 47937]
Superfamily:   Functional domain of the splicing factor Prp18 [ 47938]
Families:   Functional domain of the splicing factor Prp18 [ 47939]


Superfamily statistics
Genomes (479) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 640 680 1
Proteins 639 677 1


Functional annotation
General category Information
Detailed category Translation

Document:
Function annotation of SCOP domain superfamilies

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processmRNA splicing0InformativeDirect
Cellular componentNucleus1.365e-08Least InformativeDirect
Cellular componentSpliceosome0InformativeDirect
Post-translational modificationAcetylation1.752e-06Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR004098 SSF47938 Protein matches
Abstract

The splicing factor Prp18 is required for the second step of pre-mRNA splicing. PRP18 appears to be primarily associated with the U5 snRNP.

The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known [PubMed10737784]. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles [PubMed10737784].


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

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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 1 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 Functional domain of the splicing factor Prp18 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 1 hidden Markov models representing the Functional domain of the splicing factor Prp18 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 · UniProtKB KeyWords (KW) · Internal database links ]