SUPERFAMILY 1.75 HMM library and genome assignments server

RNA-binding domain, RBD superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   RNA-binding domain, RBD [ 54928] (5)
Families:   Canonical RBD [ 54929] (67)
  Non-canonical RBD domain [ 54954]
  Splicing factor U2AF subunits [ 64276]
  Smg-4/UPF3 [ 102987]
  GUCT domain [ 160314]


Superfamily statistics
Genomes (1,017) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 111,879 114,064 138
Proteins 81,229 84,156 130


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

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)heterocycle metabolic process0.0000013040Least InformativeDirect
Biological Process (BP)cellular aromatic compound metabolic process0.0000014630Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process0.000001560Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process0.000010190Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process0.00015570Least InformativeDirect
Biological Process (BP)regulation of cellular process0.87160.07656Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.0051530Least InformativeInherited
Biological Process (BP)positive regulation of biological process0.42921Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.56851Least InformativeInherited
Biological Process (BP)localization0.57461Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)multicellular organismal process0.28061Least InformativeInherited
Biological Process (BP)developmental process0.080091Least InformativeInherited
Biological Process (BP)gene expression00Moderately InformativeDirect
Biological Process (BP)RNA metabolic process0.0000000000000016820Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.89390.01819Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.13980.1096Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.095690.00000137Moderately InformativeInherited
Biological Process (BP)regulation of localization0.047321Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.51610.00003494Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.13520.7224Moderately InformativeInherited
Biological Process (BP)reproductive process0.10610.000001396Moderately InformativeInherited
Biological Process (BP)multi-organism process0.59240.257Moderately InformativeInherited
Biological Process (BP)cell differentiation0.0030380.1636Moderately InformativeInherited
Biological Process (BP)cellular localization0.058620.3481Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.096180Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.73831Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.99051Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process10.8531Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.015010.009081Moderately InformativeInherited
Biological Process (BP)organic substance transport0.061410.7812Moderately InformativeInherited
Biological Process (BP)RNA processing0.0000000000037380InformativeDirect
Biological Process (BP)cellular process involved in reproduction in multicellular organism0.000078720InformativeDirect
Biological Process (BP)cytoplasmic transport0.00021130.000000000004411InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.00043290InformativeDirect
Biological Process (BP)ribonucleoprotein complex biogenesis0.00052360InformativeDirect
Biological Process (BP)nitrogen compound transport0.00082050.0000001429InformativeDirect
Biological Process (BP)negative regulation of nitrogen compound metabolic process0.013510.4947InformativeInherited
Biological Process (BP)positive regulation of transport0.000043851InformativeInherited
Biological Process (BP)regulation of intracellular transport0.0000013430.01495InformativeInherited
Biological Process (BP)multicellular organismal reproductive process0.0030560.00000000001358InformativeInherited
Biological Process (BP)sexual reproduction0.0042230.00000000000003082InformativeInherited
Biological Process (BP)single organism reproductive process0.029290.0000001229InformativeInherited
Biological Process (BP)single-organism intracellular transport0.0036821InformativeInherited
Biological Process (BP)establishment of RNA localization0.000000000025170Highly InformativeDirect
Biological Process (BP)nuclear export0.00000000014410.000000000009543Highly InformativeDirect
Biological Process (BP)regulation of nucleocytoplasmic transport0.0000000011770.00007129Highly InformativeDirect
Biological Process (BP)positive regulation of intracellular transport0.000000017710.0001978Highly InformativeDirect
Biological Process (BP)nucleobase-containing compound transport0.000000022040Highly InformativeDirect
Biological Process (BP)regulation of mRNA processing0.000000094370Highly InformativeDirect
Biological Process (BP)mRNA processing0.000000370Highly InformativeDirect
Biological Process (BP)RNA splicing0.0000044710Highly InformativeDirect
Biological Process (BP)response to cold0.000083750.00002163Highly InformativeDirect
Biological Process (BP)regulation of translation0.00011870Highly InformativeDirect
Biological Process (BP)germ cell development0.00067520Highly InformativeDirect
Molecular Function (MF)binding0.0000012230Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)RNA binding00InformativeDirect
Molecular Function (MF)mRNA binding0.00047740Highly InformativeDirect
Molecular Function (MF)protein domain specific binding0.00032530.3207Highly InformativeInherited
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.0033890Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.040870.0001582Least InformativeInherited
Cellular Component (CC)ribonucleoprotein complex0.0000052470Moderately InformativeDirect
Cellular Component (CC)nuclear part0.000024350Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.057450Moderately InformativeInherited
Cellular Component (CC)nucleoplasm part0.37870.2419InformativeInherited
Cellular Component (CC)nuclear body0.0000024860Highly InformativeDirect
Cellular Component (CC)spliceosomal complex0.000070760Highly InformativeDirect

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) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.07656 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.00000137 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) reproductive process 0.000001396 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.00003494 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0009152 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.7224 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.1096 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.3481 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.8531 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.01819 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 1 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.5448 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.2109 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.1636 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.257 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.7812 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.009081 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) RNA processing 0 Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0 Informative Direct
Biological Process (BP) cytoplasmic transport 0.000000000004411 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0 Informative Direct
Biological Process (BP) nitrogen compound transport 0.0000001429 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 0.00000000001358 Informative Direct
Biological Process (BP) sexual reproduction 0.00000000000003082 Informative Direct
Biological Process (BP) single organism reproductive process 0.0000001229 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.000000000001588 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 0.000004716 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 0.0005629 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) regulation of cell development 1 Informative Inherited
Biological Process (BP) positive regulation of RNA metabolic process 0.8936 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.4947 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 0.9622 Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0.03364 Informative Inherited
Biological Process (BP) alcohol metabolic process 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) positive regulation of catabolic process 1 Informative Inherited
Biological Process (BP) cardiovascular system development 1 Informative Inherited
Biological Process (BP) chromosome organization 1 Informative Inherited
Biological Process (BP) cell proliferation 0.1196 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) organophosphate catabolic process 1 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 1 Informative Inherited
Biological Process (BP) dephosphorylation 1 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.9581 Informative Inherited
Biological Process (BP) response to acid chemical 0.6259 Informative Inherited
Biological Process (BP) response to organonitrogen compound 1 Informative Inherited
Biological Process (BP) response to oxidative stress 0.002777 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.01495 Informative Inherited
Biological Process (BP) locomotion 1 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.01017 Informative Inherited
Biological Process (BP) regulation of cell cycle process 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.4216 Informative Inherited
Biological Process (BP) response to organic cyclic compound 1 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of developmental process 1 Informative Inherited
Biological Process (BP) single-organism cellular localization 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.008999 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.8083 Informative Inherited
Biological Process (BP) cell division 0.03036 Informative Inherited
Biological Process (BP) vesicle-mediated transport 1 Informative Inherited
Biological Process (BP) synaptic transmission 1 Informative Inherited
Biological Process (BP) organelle localization 1 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) response to light stimulus 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.003652 Informative Inherited
Biological Process (BP) microtubule-based process 0.9764 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8982 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.2081 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 1 Informative Inherited
Biological Process (BP) single-organism intracellular transport 1 Informative Inherited
Biological Process (BP) transcription, DNA-templated 1 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 1 Informative Inherited
Biological Process (BP) establishment of RNA localization 0 Highly Informative Direct
Biological Process (BP) nuclear export 0.000000000009543 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.00007129 Highly Informative Direct
Biological Process (BP) positive regulation of intracellular transport 0.0001978 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0 Highly Informative Direct
Biological Process (BP) regulation of mRNA processing 0 Highly Informative Direct
Biological Process (BP) mRNA processing 0 Highly Informative Direct
Biological Process (BP) RNA splicing 0 Highly Informative Direct
Biological Process (BP) response to cold 0.00002163 Highly Informative Direct
Biological Process (BP) regulation of translation 0 Highly Informative Direct
Biological Process (BP) germ cell development 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) regulation of mitochondrion organization 0 Highly Informative Direct
Biological Process (BP) electron transport chain 0.000000000000009016 Highly Informative Direct
Biological Process (BP) positive regulation of homeostatic process 0.00000000000005193 Highly Informative Direct
Biological Process (BP) gene silencing 0.00000000000007259 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 0.0000000000004315 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.000000001898 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.000000003472 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0.00000001785 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.00000004409 Highly Informative Direct
Biological Process (BP) response to amino acid 0.00002636 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0001593 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 0.00496 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.003291 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.5694 Highly Informative Inherited
Biological Process (BP) inositol phosphate metabolic process 0.04384 Highly Informative Inherited
Biological Process (BP) response to hypoxia 0.1865 Highly Informative Inherited
Biological Process (BP) cellular response to acid chemical 0.1744 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 1 Highly Informative Inherited
Biological Process (BP) protein methylation 0.6258 Highly Informative Inherited
Biological Process (BP) histone modification 1 Highly Informative Inherited
Biological Process (BP) alcohol catabolic process 0.1576 Highly Informative Inherited
Biological Process (BP) positive regulation of cell division 0.006325 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.04237 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.001667 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) positive regulation of mitotic cell cycle 0.4653 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 1 Highly Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0.9912 Highly Informative Inherited
Biological Process (BP) stem cell development 0.008987 Highly Informative Inherited
Biological Process (BP) establishment of synaptic vesicle localization 0.3467 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.001283 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.1808 Highly Informative Inherited
Biological Process (BP) adult behavior 0.6303 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.3937 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.1058 Highly Informative Inherited
Biological Process (BP) cellular component assembly involved in morphogenesis 0.9749 Highly Informative Inherited
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.5695 Highly Informative Inherited
Biological Process (BP) epithelial cell development 1 Highly Informative Inherited
Biological Process (BP) cell fate commitment 1 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 1 Highly Informative Inherited
Biological Process (BP) regulation of nuclear division 0.1971 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.3264 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.4965 Highly Informative Inherited
Biological Process (BP) RNA phosphodiester bond hydrolysis, endonucleolytic 0.1554 Highly Informative Inherited
Biological Process (BP) rRNA processing 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) transporter activity 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0.9145 Informative Inherited
Molecular Function (MF) transferase activity, transferring one-carbon groups 1 Informative Inherited
Molecular Function (MF) chromatin binding 0.6817 Informative Inherited
Molecular Function (MF) phosphatase activity 1 Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 1 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) mRNA binding 0 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0.00000000000001064 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.3207 Highly Informative Inherited
Molecular Function (MF) ribonucleoprotein complex binding 0.04535 Highly Informative Inherited
Molecular Function (MF) methyltransferase activity 0.933 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) adenylyltransferase activity 0.02182 Highly Informative Inherited
Molecular Function (MF) translation factor activity, nucleic acid binding 1 Highly Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0.5726 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0001582 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.003649 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) transferase complex 1 Moderately Informative Inherited
Cellular Component (CC) extracellular region part 1 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.2419 Informative Inherited
Cellular Component (CC) chromosome 1 Informative Inherited
Cellular Component (CC) nuclear body 0 Highly Informative Direct
Cellular Component (CC) spliceosomal complex 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic ribonucleoprotein granule 0 Highly Informative Direct
Cellular Component (CC) chromatin 1 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 1 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)Transferring one-carbon groups0.00000000004189Least InformativeDirect
Enzyme Commission (EC)Isomerases0.000002211Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01123Least InformativeInherited
Enzyme Commission (EC)Acting on ester bonds0.003436Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.02837Least InformativeInherited
Enzyme Commission (EC)Methyltransferases0.000000000000009651Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.00000004046Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.02062Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0InformativeDirect
Enzyme Commission (EC)Polynucleotide adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)RNA uridylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0.00000000000004272Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the vasculature0.3224Moderately InformativeInherited
Phenotypic Abnormality (PA)Arteriovenous malformation0.0002387Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.00001008Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.04874Least InformativeInherited
Worm Phenotype (WP)larval development variant0.883Least InformativeInherited
Worm Phenotype (WP)growth variant0.9964Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.000000004967Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.00006171Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.001356Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.004062Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.2825Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.7465Moderately InformativeInherited
Worm Phenotype (WP)sterile progeny1Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant0.000000003456InformativeDirect
Worm Phenotype (WP)sick0.00000003371InformativeDirect
Worm Phenotype (WP)brood size variant0.000009047InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.00005507InformativeDirect
Worm Phenotype (WP)VPC competence variant0.01983InformativeInherited
Worm Phenotype (WP)vulva development variant0.08108InformativeInherited
Worm Phenotype (WP)egg laying variant0.3289InformativeInherited
Worm Phenotype (WP)cell proliferation increased0Highly InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.000004306Highly InformativeDirect
Worm Phenotype (WP)P granule defective0.0002637Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant0.005875Highly InformativeInherited
Worm Phenotype (WP)mRNA expression variant0.7726Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cell0.000000000003092Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.000000000074Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0.00001838Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0.0001263Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0008088Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.002299Least InformativeInherited
Xenopus ANatomical entity (XAN)gonad0.007869Least InformativeInherited
Xenopus ANatomical entity (XAN)central nervous system0.008528Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.01421Least InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.01805Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.00000000000007298Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete0.0000000000001023Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0.0000009492Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.000001701Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0.00001221Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.00002946Moderately InformativeDirect
Xenopus ANatomical entity (XAN)intestine0.00004757Moderately InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.000136Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.0009585Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ovary0.0009593Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0.2066Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0.00000000000000373InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system0.000000003153InformativeDirect
Xenopus ANatomical entity (XAN)heart0.0000004243InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.0000007742InformativeDirect
Xenopus ANatomical entity (XAN)lung0.00003776InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.00005467InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.00007949InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space0.00009225InformativeDirect
Xenopus ANatomical entity (XAN)skeletal muscle0.0001179InformativeDirect
Xenopus ANatomical entity (XAN)hematological system0.0002011InformativeDirect
Xenopus ANatomical entity (XAN)spleen0.0004021InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.0007254InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0.0007274InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.009955InformativeInherited
Xenopus ANatomical entity (XAN)mesoderm0.0339InformativeInherited
Xenopus ANatomical entity (XAN)stomach0.000004396Highly InformativeDirect
Xenopus ANatomical entity (XAN)ventral blood island0.00005346Highly InformativeDirect
Xenopus ANatomical entity (XAN)intermediate mesoderm0.0002936Highly 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 cell0.00000007607Least InformativeDirect
Plant ANatomical entity (PAN)seed0.00000502Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0.00009532Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.002247Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.004391Least InformativeInherited
Plant ANatomical entity (PAN)inflorescence0.008723Least InformativeInherited
Plant ANatomical entity (PAN)whole plant0.01899Least InformativeInherited
Plant ANatomical entity (PAN)flower0.1609Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure0.189Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.1999Least InformativeInherited
Plant ANatomical entity (PAN)gamete0.00006354InformativeDirect
Plant ANatomical entity (PAN)cultured plant cell0.000146Highly InformativeDirect
Plant ANatomical entity (PAN)bud0.03099Highly InformativeInherited
Plant structure DEvelopment stage (PDE)D bilateral stage0.0000119Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.00004674Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0.00009105Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0.0001045Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0.0009825Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.0363Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.00000000001118Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.0000001641Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01041Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.02326Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.03667Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)RNA helicase0.000000000001151InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000004636InformativeDirect
Enzyme Commission (EC)Polynucleotide adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)RNA uridylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0.0000000000002447Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processDifferentiation0Moderately InformativeDirect
Biological processTranscription regulation0.0002261Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processBiological rhythms0InformativeDirect
Biological processmRNA splicing0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processMeiosis0.0000000000001882InformativeDirect
Biological processRibosome biogenesis0.000003022InformativeDirect
Biological processrRNA processing0.0001336InformativeDirect
Biological processProtein biosynthesis0.0001468InformativeDirect
Biological processmRNA transport0Highly InformativeDirect
Biological processNonsense-mediated mRNA decay0Highly InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis0.00001947Highly InformativeDirect
Biological processTranslocation0.06916Highly InformativeInherited
Cellular componentNucleus0Least InformativeDirect
Cellular componentSpliceosome0InformativeDirect
Cellular componentChromosome0.00000009825InformativeDirect
Coding sequence diversityAlternative splicing0Least InformativeDirect
DiseaseNeurodegeneration0.0009715Highly InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0.0000000002822Moderately InformativeDirect
DomainZinc-finger0.0000482Moderately InformativeDirect
DomainWD repeat0.000001182InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationIsomerase1Moderately InformativeInherited
Post-translational modificationInitiation factor0InformativeDirect
Post-translational modificationChromatin regulator0.000006235InformativeDirect
Post-translational modificationRotamase0.0000006975Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationMethylation9.055e-16Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 98 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 RNA-binding domain, RBD 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 98 hidden Markov models representing the RNA-binding domain, RBD 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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]