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 (3,150) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 4,557 0 12
Proteins 4,557 0 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 0.1438 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.2878 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.1961 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.02416 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1332 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.3793 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.5444 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.1296 Least Informative Inherited
Biological Process (BP) gene expression 3.383e-06 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.05325 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.1015 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.06599 Moderately Informative Inherited
Biological Process (BP) ribonucleoprotein complex biogenesis 8.202e-06 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 7.289e-05 Informative Direct
Biological Process (BP) ncRNA metabolic process 0.001463 Informative Inherited
Biological Process (BP) RNA processing 0.3174 Informative Inherited
Biological Process (BP) rRNA processing 2.62e-07 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.2023 Least Informative Inherited
Molecular Function (MF) structural molecule activity 1.82e-05 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.00206 Moderately Informative Inherited
Molecular Function (MF) structural constituent of ribosome 6.966e-08 Informative Direct
Molecular Function (MF) nuclease activity 6.045e-07 Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.00381 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.002839 Least Informative Inherited
Cellular Component (CC) protein complex 0.9798 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.05877 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0.008925 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.03614 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.001079 Moderately Informative Inherited

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 ]