SUPERFAMILY 1.75 HMM library and genome assignments server


Ribosomal L27 protein-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Barrel-sandwich hybrid [ 51229] (4)
Superfamily:   Ribosomal L27 protein-like [ 110324] (2)
Families:   Ribosomal L27 protein [ 110325]
  ECR1 N-terminal domain-like [ 159324] (4)


Superfamily statistics
Genomes (3,115) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 4,488 8,443 12
Proteins 4,488 8,442 12


Functional annotation
General category Information
Detailed category Translation

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) cellular aromatic compound metabolic process 0.08028 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.1757 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1139 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.01962 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.07353 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.05969 Least Informative Inherited
Biological Process (BP) gene expression 4.985e-06 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.0324 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.1049 Moderately Informative Inherited
Biological Process (BP) ribonucleoprotein complex biogenesis 3.886e-06 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 7.293e-05 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.001386 Informative Inherited
Biological Process (BP) RNA processing 0.2291 Informative Inherited
Biological Process (BP) rRNA processing 1.29e-07 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.1276 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.00103 Moderately Informative Inherited
Molecular Function (MF) nuclease activity 2.595e-07 Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0002913 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0004262 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.07821 Least Informative Inherited
Cellular Component (CC) protein complex 0.9683 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.0002446 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.007441 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.004862 Moderately Informative Inherited
Cellular Component (CC) nucleolus 0.0007702 Informative Direct
Cellular Component (CC) large ribosomal subunit 1.121e-08 Informative Direct

Document: GO annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0Moderately InformativeDirect

Document: XA 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
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001684 SSF110324 Protein matches
Abstract

L27 is a protein from the large (50S) subunit; it is essential for ribosome function, but its exact role is unclear. It belongs to a family of ribosomal proteins, examples of which are found in bacteria, chloroplasts of plants and red algae and the mitochondria of fungi (e.g. MRP7 from yeast mitochondria). The schematic relationship between these groups of proteins is shown below.

Bacterial L27           Nxxxxxxxxx
Algal L27               Nxxxxxxxxx
Plant L27          tttttNxxxxxxxxxxxxx
Yeast MRP7           tttNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx

't': transit peptide.
'N': N-terminal of mature protein.


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) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 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 Ribosomal L27 protein-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 Ribosomal L27 protein-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 · Gene Ontology (high-coverage) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]