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Ribosomal protein L13 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Ribosomal protein L13 [ 52160]
Superfamily:   Ribosomal protein L13 [ 52161]
Families:   Ribosomal protein L13 [ 52162]


Superfamily statistics
Genomes (3,234) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,321 20,237 11
Proteins 4,314 20,221 11


Functional annotation
General category Information
Detailed category Translation

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biosynthetic process0.0019930.00000166Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.0016620.000007302Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.0059830.0002709Least InformativeInherited
Biological Process (BP)primary metabolic process0.019540.01343Least InformativeInherited
Biological Process (BP)macromolecule metabolic process0.0026260.0005821Least InformativeInherited
Biological Process (BP)peptide metabolic process0.0000013660Moderately InformativeDirect
Biological Process (BP)gene expression0.000025540.0000000003556Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.000014940.00000000006246Moderately InformativeDirect
Biological Process (BP)amide biosynthetic process0.0000024580Moderately InformativeDirect
Molecular Function (MF)structural molecule activity0.00000067480Moderately InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle0.00022130.0000000001397Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.0045380.0004284Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.033160.00003229Least InformativeInherited
Cellular Component (CC)ribosome0.000018050Moderately InformativeDirect
Cellular Component (CC)large ribosomal subunit0.000000044540InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) biosynthetic process 0.00000166 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.000007302 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.0005821 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.0002709 Least Informative Direct
Biological Process (BP) biological regulation 0.5489 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.3033 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.01343 Least Informative Inherited
Biological Process (BP) peptide metabolic process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.00003164 Moderately Informative Direct
Biological Process (BP) gene expression 0.0000000003556 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0008211 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.00000000006246 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0006357 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000008801 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.00241 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.00199 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.001266 Moderately Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.0000002706 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.00000000002451 Informative Direct
Biological Process (BP) negative regulation of gene expression 0.000001512 Informative Direct
Biological Process (BP) negative regulation of cellular biosynthetic process 0.0000004071 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.0000000004401 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000000000007872 Informative Direct
Biological Process (BP) ribosome biogenesis 0.0000009887 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.0000004168 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.000001103 Informative Direct
Biological Process (BP) negative regulation of translation 0 Highly Informative Direct
Biological Process (BP) mitochondrial gene expression 0.0005794 Highly Informative Direct
Molecular Function (MF) binding 0.9352 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.0007126 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0 Moderately Informative Direct
Molecular Function (MF) RNA binding 0.0000006589 Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0000000001397 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0004284 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00003229 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.00000000000004856 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.02432 Moderately Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.00000000005225 Informative Direct
Cellular Component (CC) large ribosomal subunit 0 Informative Direct
Cellular Component (CC) cytosolic ribosome 0.00562 Informative Inherited
Cellular Component (CC) mitochondrial large ribosomal subunit 0.000000000001945 Highly Informative Direct

Document: GO 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
Post-translational modificationCitrullination0.00000000002015Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR005822 SSF52161 Protein matches
Abstract

Ribosomal protein L13 is one of the proteins from the large ribosomal subunit [PubMed8119894]. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.


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-quality) · 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 5 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 protein L13 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 5 hidden Markov models representing the Ribosomal protein L13 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-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]