Ribosomal protein L11, C-terminal domain superfamily

SCOP classification

Root:	SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:	All alpha proteins [ 46456] (284)
Fold:	DNA/RNA-binding 3-helical bundle [ 46688] (14)
Superfamily:	Ribosomal protein L11, C-terminal domain [ 46906]
Families:	Ribosomal protein L11, C-terminal domain [ 46907]

Superfamily statistics

	Genomes (2,477)	Uniprot 2013_05	PDB chains (SCOP 1.75)
Domains	3,469	8,258	23
Proteins	3,468	8,257	23

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)	biosynthetic process	3.425e-05	Least Informative	Direct
Biological Process (BP)	cellular macromolecule metabolic process	6.43e-08	Least Informative	Direct
Biological Process (BP)	protein metabolic process	0.06038	Least Informative	Inherited
Biological Process (BP)	gene expression	2.485e-06	Moderately Informative	Direct
Biological Process (BP)	cellular macromolecule biosynthetic process	2.611e-06	Moderately Informative	Direct
Molecular Function (MF)	structural molecule activity	3.567e-12	Moderately Informative	Direct
Molecular Function (MF)	structural constituent of ribosome	0	Informative	Direct
Cellular Component (CC)	intracellular non-membrane-bounded organelle	4.816e-08	Least Informative	Direct
Cellular Component (CC)	cytoplasmic part	7.069e-07	Least Informative	Direct
Cellular Component (CC)	intracellular organelle part	5.086e-05	Least Informative	Direct
Cellular Component (CC)	ribonucleoprotein complex	0	Moderately Informative	Direct
Cellular Component (CC)	cytosol	0.04543	Moderately Informative	Inherited
Cellular Component (CC)	large ribosomal subunit	0	Informative	Direct

Document: GO annotation of SCOP domains

Yeast Phenotype (YP)

(show details)

	YP term	FDR (all)	SDYP level	Annotation (direct or inherited)
Yeast Phenotype (YP)	nutrient utilization	0	Moderately Informative	Direct
Yeast Phenotype (YP)	utilization of carbon source	0	Informative	Direct

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)

	AP term	FDR (all)	SDAP level	Annotation (direct or inherited)
Plant ANatomical entity (PAN)	shoot apex	0	Least Informative	Direct
Plant ANatomical entity (PAN)	plant embryo	0	Least Informative	Direct
Plant ANatomical entity (PAN)	seed	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	E expanded cotyledon stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	F mature embryo stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	D bilateral stage	0	Least Informative	Direct

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)

	KW term	FDR (all)	SDKW level	Annotation (direct or inherited)
Molecular function	RNA-binding	0	Moderately Informative	Direct
Molecular function	rRNA-binding	0	Informative	Direct
Post-translational modification	Ribonucleoprotein	0	Moderately Informative	Direct
Post-translational modification	Ribosomal protein	0	Informative	Direct
Post-translational modification	Methylation	0	Moderately Informative	Direct

Document: KW annotation of SCOP domains

InterPro annotation

Cross references IPR000911 SSF46906 Protein matches

Abstract
Ribosomal protein L11 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L11 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [ PubMed 2167467], groups bacteria, plant chloroplast, read algal chloroplast, cyanelle and archaeabacterial L11; and mammalian, plant and yeast L12 (YL15). L11 is a protein of 140 to 165 amino-acid residues. In E. coli, the C-terminal half of L11 has been shown [ PubMed 2483975] to be in an extended and loosely folded conformation and is likely to be buried within the ribosomal structure.

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) · Yeast Phenotype (YP) · 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 6 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 L11, C-terminal domain 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 6 hidden Markov models representing the Ribosomal protein L11, C-terminal domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.

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Ribosomal protein L11, C-terminal domain superfamily