SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


dsRNA-binding domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   dsRBD-like [ 54767] (5)
Superfamily:   dsRNA-binding domain-like [ 54768] (3)
Families:   Double-stranded RNA-binding domain (dsRBD) [ 54769] (12)
  The homologous-pairing domain of Rad52 recombinase [ 82645]
  Ribosomal S5 protein, N-terminal domain [ 54778]


Superfamily statistics
Genomes (3,262) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 17,227 61,745 40
Proteins 13,752 53,817 39


Functional annotation
General category Regulation
Detailed category RNA binding, metabolism and transport

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) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.00000000000002606 Least Informative Direct
Biological Process (BP) biological regulation 0.0000000002524 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000004111 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.07688 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.204 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) multi-organism process 0 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0.000000000003843 Moderately Informative Direct
Biological Process (BP) response to biotic stimulus 0.000000000005679 Moderately Informative Direct
Biological Process (BP) immune system process 0.00000000004629 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.00000000006944 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.0000000001696 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.0000000002518 Moderately Informative Direct
Biological Process (BP) defense response 0.00000001037 Moderately Informative Direct
Biological Process (BP) peptide metabolic process 0.00000006208 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.000000246 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.0000007896 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.000001018 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.000001094 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.002123 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.004508 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.06556 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.506 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.3147 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.01629 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.001128 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.3132 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.2543 Moderately Informative Inherited
Biological Process (BP) tissue development 0.7856 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.002388 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.001585 Moderately Informative Inherited
Biological Process (BP) animal organ development 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Informative Direct
Biological Process (BP) negative regulation of gene expression 0 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0 Informative Direct
Biological Process (BP) response to nitrogen compound 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) immune effector process 0 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0 Informative Direct
Biological Process (BP) multicellular organism reproduction 0.00000000000004411 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.0000000000001909 Informative Direct
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.0000000000003277 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000000000003307 Informative Direct
Biological Process (BP) cell development 0.0000000003369 Informative Direct
Biological Process (BP) defense response to other organism 0.0000000004477 Informative Direct
Biological Process (BP) chromosome organization 0.0000000006178 Informative Direct
Biological Process (BP) behavior 0.00003098 Informative Direct
Biological Process (BP) central nervous system development 0.0003601 Informative Direct
Biological Process (BP) RNA modification 0.0004744 Informative Direct
Biological Process (BP) ncRNA processing 0.0005881 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.001111 Informative Inherited
Biological Process (BP) regulation of defense response 0.005129 Informative Inherited
Biological Process (BP) embryo development 0.1186 Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.2179 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.1858 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.1338 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.1727 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) interspecies interaction between organisms 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 1 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.02802 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.1157 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.4298 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.001511 Informative Inherited
Biological Process (BP) positive regulation of transport 0.4898 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.9009 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8162 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.009206 Informative Inherited
Biological Process (BP) epithelium development 0.9213 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 0.2136 Informative Inherited
Biological Process (BP) regulation of viral process 0 Highly Informative Direct
Biological Process (BP) response to virus 0 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0 Highly Informative Direct
Biological Process (BP) negative regulation of translation 0 Highly Informative Direct
Biological Process (BP) germ cell development 0.000000000000001925 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0.00000000000001422 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0.000000000001254 Highly Informative Direct
Biological Process (BP) double-strand break repair 0.000000004932 Highly Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.000005836 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.00002313 Highly Informative Direct
Biological Process (BP) negative regulation of multi-organism process 0.000137 Highly Informative Direct
Biological Process (BP) regulation of fibroblast proliferation 0.0002588 Highly Informative Direct
Biological Process (BP) locomotory behavior 0.0007923 Highly Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.02586 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 0.865 Highly Informative Inherited
Biological Process (BP) regulation of binding 0.01976 Highly Informative Inherited
Biological Process (BP) regulation of protein stability 0.001754 Highly Informative Inherited
Biological Process (BP) embryonic organ development 0.04132 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.05147 Highly Informative Inherited
Biological Process (BP) regulation of nucleocytoplasmic transport 0.001344 Highly Informative Inherited
Biological Process (BP) positive regulation of intracellular transport 0.002158 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.3643 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.004049 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 1 Highly Informative Inherited
Biological Process (BP) modification of morphology or physiology of other organism involved in symbiotic interaction 0.003825 Highly Informative Inherited
Biological Process (BP) negative regulation of transferase activity 0.002417 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.1377 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.06898 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 0.2655 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) RNA splicing 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.00000002946 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) structural molecule activity 0.00000005702 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.0001408 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.0228 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) nuclease activity 0.0000000000281 Informative Direct
Molecular Function (MF) ATPase activity 0.001228 Informative Inherited
Molecular Function (MF) macromolecular complex binding 0.5478 Informative Inherited
Molecular Function (MF) enzyme binding 0.04454 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.007514 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) deaminase activity 0.00000000001182 Highly Informative Direct
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines 0.00000000005136 Highly Informative Direct
Molecular Function (MF) endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomo 0.00000001504 Highly Informative Direct
Molecular Function (MF) endoribonuclease activity 0.00000003638 Highly Informative Direct
Molecular Function (MF) nucleoside-triphosphate diphosphatase activity 0.000001114 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0.000005988 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0455 Highly Informative Inherited
Molecular Function (MF) chromatin binding 0.3111 Highly Informative Inherited
Molecular Function (MF) double-stranded DNA binding 0.2048 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 0.9843 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00003221 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0001625 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.7616 Least Informative Inherited
Cellular Component (CC) ribosome 0 Moderately Informative Direct
Cellular Component (CC) cytosolic part 0.0000001777 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.3631 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.002146 Moderately Informative Inherited
Cellular Component (CC) mitochondrial ribosome 0.0000000000002953 Informative Direct
Cellular Component (CC) small ribosomal subunit 0.0001351 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.07966 Informative Inherited
Cellular Component (CC) cytosolic ribosome 0.6486 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1758 Informative Inherited
Cellular Component (CC) large ribosomal subunit 1 Informative Inherited
Cellular Component (CC) chromosome 0.9718 Informative Inherited
Cellular Component (CC) mitochondrial small ribosomal subunit 0.000000007264 Highly Informative Direct
Cellular Component (CC) nuclear body 0.0001117 Highly Informative Direct
Cellular Component (CC) mitochondrial large ribosomal subunit 0.0006796 Highly Informative Direct
Cellular Component (CC) cytosolic small ribosomal subunit 0.0009679 Highly Informative Direct
Cellular Component (CC) chromatin 0.01408 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.6412 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0Moderately InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0.03156Moderately InformativeInherited
Biological processtRNA processing0InformativeDirect
Biological processrRNA processing0InformativeDirect
Biological processmRNA processing0InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processAntiviral defense0.0000000001508Highly InformativeDirect
Biological processSpermatogenesis0.0000004559Highly InformativeDirect
Cellular componentCytoplasm0.0000007625Least InformativeDirect
Coding sequence diversityAlternative promoter usage0.0008374Moderately InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationRibonucleoprotein0Moderately InformativeDirect
Post-translational modificationRNA-binding0Moderately InformativeDirect
Post-translational modificationrRNA-binding0InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationRibosomal protein0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 24 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 dsRNA-binding domain-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 24 hidden Markov models representing the dsRNA-binding domain-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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]