SUPERFAMILY 1.75 HMM library and genome assignments server


SRP19 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   SRP19 [ 69694]
Superfamily:   SRP19 [ 69695]
Families:   SRP19 [ 69696]


Superfamily statistics
Genomes (633) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 734 927 5
Proteins 734 925 5


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) localization 1.011e-05 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.001453 Least Informative Inherited
Biological Process (BP) organic substance transport 9.723e-09 Moderately Informative Direct
Biological Process (BP) macromolecule localization 1.189e-08 Moderately Informative Direct
Biological Process (BP) cellular localization 5.974e-08 Moderately Informative Direct
Biological Process (BP) protein localization to organelle 1.126e-11 Informative Direct
Biological Process (BP) cytoplasmic transport 6.024e-11 Informative Direct
Biological Process (BP) protein transport 1.634e-10 Informative Direct
Biological Process (BP) establishment of protein localization to organelle 1.068e-13 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.000171 Least Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR002778 SSF69695 Protein matches
Abstract

This entry represents the SRP19 subunit. The SRP19 protein is unstructured but forms a compact core domain and two extended RNA-binding loops upon binding the signal recognition particle (SRP) RNA [PubMed17434535].


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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

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 3 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 SRP19 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 3 hidden Markov models representing the SRP19 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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]