SUPERFAMILY 1.75 HMM library and genome assignments server

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Zn-binding ribosomal proteins superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Rubredoxin-like [ 57769] (17)
Superfamily:   Zn-binding ribosomal proteins [ 57829] (8)
Families:   Ribosomal protein L37ae [ 57830]
  Ribosomal protein L37e [ 57833]
  Ribosomal protein L44e [ 57836]
  Ribosomal protein S27e [ 90217]
  Ribosomal protein L32p [ 144200]
  Ribosomal protein L33p [ 144203]
  Ribosomal protein L40e [ 161181]
  Ribosomal protein S27a [ 161184]


Superfamily statistics
Genomes (3,219) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 12,314 70,788 32
Proteins 12,304 70,752 32


Functional annotation
General category Information
Detailed category Translation

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.002944Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.005975Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.007803Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.0337Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.00000003233Moderately InformativeDirect
Worm Phenotype (WP)feeding behavior variant0.0000007439Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.0001226Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0.0002138Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0006637Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0009652Moderately InformativeDirect
Worm Phenotype (WP)pleiotropic defects severe early emb0.00000000000003366InformativeDirect
Worm Phenotype (WP)avoids bacterial lawn0.00000003977InformativeDirect
Worm Phenotype (WP)body width variant0.0001588InformativeDirect
Worm Phenotype (WP)RNA expression variant0.004407InformativeInherited
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.02289InformativeInherited
Worm Phenotype (WP)RNA processing variant0.000002675Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic processing body variant0.00001658Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0Least InformativeDirect

Document: FP 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)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.5717Least InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)germ line cell0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.004813Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.07103Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.09642Moderately InformativeInherited
Xenopus ANatomical entity (XAN)eye0InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0InformativeDirect
Xenopus ANatomical entity (XAN)pancreas0.0000003737InformativeDirect
Xenopus ANatomical entity (XAN)skeletal muscle0.0001928InformativeDirect
Xenopus DEvelopment stage (XDE)post-embryonic stage0Least InformativeDirect
Xenopus DEvelopment stage (XDE)climax stage0Moderately 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

Document: AP annotation of SCOP domains

InterPro annotation
Cross references IPR011332 SSF57829 Protein matches
Abstract

This entry represents a rubredoxin-like metal-binding fold found in ribosomal proteins L37ae, L37e, L44e and S27e. This domain contains two CX(n)C motifs (where n is usually two) [PubMed15184028, PubMed15096641].


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 · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) ]

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 14 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 Zn-binding ribosomal proteins 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 14 hidden Markov models representing the Zn-binding ribosomal proteins 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 · Disease Ontology (DO) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]