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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 (1,018) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 112,053 114,064 138
Proteins 81,338 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)cellular aromatic compound metabolic process0.00035980Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.00037360Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.00064240Least InformativeDirect
Biological Process (BP)macromolecule metabolic process0.0022970Least InformativeInherited
Biological Process (BP)biological regulation0.39240Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)primary metabolic process0.31290.0000000197Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0012190Least InformativeInherited
Biological Process (BP)RNA metabolic process0.00000000002460Moderately InformativeDirect
Biological Process (BP)gene expression0.00000000050260Moderately InformativeDirect
Biological Process (BP)single-organism transport0.12581Moderately InformativeInherited
Biological Process (BP)regulation of localization0.020531Moderately InformativeInherited
Biological Process (BP)regulation of nitrogen compound metabolic process0.0029520Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.055270Moderately InformativeInherited
Biological Process (BP)system development0.73911Moderately InformativeInherited
Biological Process (BP)organic substance transport0.035080.6538Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.17490.1903Moderately InformativeInherited
Biological Process (BP)response to stress0.90191Moderately InformativeInherited
Biological Process (BP)cellular localization0.0033420.008412Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.047990Moderately InformativeInherited
Biological Process (BP)regulation of biosynthetic process0.23521Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.35240.2201Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.0021590.003079Moderately InformativeInherited
Biological Process (BP)nucleocytoplasmic transport0.000000014280InformativeDirect
Biological Process (BP)nitrogen compound transport0.00014080.000000000002507InformativeDirect
Biological Process (BP)regulation of cellular amide metabolic process0.00040720InformativeDirect
Biological Process (BP)positive regulation of transport0.000026411InformativeInherited
Biological Process (BP)regulation of cellular localization0.0000021180.1665InformativeInherited
Biological Process (BP)central nervous system development0.000022310.9038InformativeInherited
Biological Process (BP)response to temperature stimulus0.01210.003147InformativeInherited
Biological Process (BP)posttranscriptional regulation of gene expression0.002580InformativeInherited
Biological Process (BP)single-organism intracellular transport0.000001931InformativeInherited
Biological Process (BP)establishment of RNA localization0.000000000012160Highly InformativeDirect
Biological Process (BP)nuclear export0.000000000040370.00000000000001243Highly InformativeDirect
Biological Process (BP)positive regulation of intracellular transport0.00000000042220.00001681Highly InformativeDirect
Biological Process (BP)nucleobase-containing compound transport0.0000000017930Highly InformativeDirect
Biological Process (BP)mRNA metabolic process0.0000000019310Highly InformativeDirect
Biological Process (BP)RNA splicing0.00000030120Highly InformativeDirect
Biological Process (BP)response to cold0.00041510.000003735Highly InformativeDirect
Biological Process (BP)brain development0.00032571Highly InformativeInherited
Molecular Function (MF)binding0.002660Least InformativeInherited
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)RNA binding00InformativeDirect
Molecular Function (MF)mRNA binding0.000085090Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0029350Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.0069050.0000000000000161Least InformativeInherited
Cellular Component (CC)nuclear part0.0000082460Moderately InformativeDirect
Cellular Component (CC)spliceosomal complex0.0000073290Highly InformativeDirect
Cellular Component (CC)small nuclear ribonucleoprotein complex0.0013750Highly InformativeInherited

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) cellular aromatic compound metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000000197 Least Informative Direct
Biological Process (BP) biological regulation 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of nitrogen compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0 Moderately Informative Direct
Biological Process (BP) reproduction 0.000002841 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0000529 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00006208 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.00006807 Moderately Informative Direct
Biological Process (BP) amide biosynthetic process 0.0005283 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1903 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 0.002832 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.2201 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) signaling 1 Moderately Informative Inherited
Biological Process (BP) peptide metabolic process 0.00136 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9595 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.003173 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) generation of precursor metabolites and energy 0.4577 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.2353 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to stress 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.09968 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.008412 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.6538 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.003079 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.8854 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.002909 Moderately Informative Inherited
Biological Process (BP) nucleocytoplasmic transport 0 Informative Direct
Biological Process (BP) nitrogen compound transport 0.000000000002507 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.00000000000005973 Informative Direct
Biological Process (BP) multicellular organism reproduction 0.0000000000005082 Informative Direct
Biological Process (BP) single organism reproductive process 0.000000006033 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.00000000006081 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0 Informative Direct
Biological Process (BP) electron transport chain 0.0000000000003258 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0.00000002313 Informative Direct
Biological Process (BP) cellular respiration 0.000005166 Informative Direct
Biological Process (BP) response to oxidative stress 0.00000532 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.00001322 Informative Direct
Biological Process (BP) regulation of organelle organization 0.00003761 Informative Direct
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.0002045 Informative Direct
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 intracellular signal transduction 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 1 Informative Inherited
Biological Process (BP) regulation of transferase activity 1 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of cell differentiation 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.4778 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.02716 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.01306 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.6241 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) reproductive system development 1 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.9477 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 1 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.4739 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 0.265 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.5646 Informative Inherited
Biological Process (BP) response to acid chemical 0.04282 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.1803 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.1665 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.4605 Informative Inherited
Biological Process (BP) ncRNA processing 1 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.7766 Informative Inherited
Biological Process (BP) cellular response to lipid 0.1069 Informative Inherited
Biological Process (BP) central nervous system development 0.9038 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.03274 Informative Inherited
Biological Process (BP) microtubule-based process 0.9166 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) regulation of system process 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure size 1 Informative Inherited
Biological Process (BP) negative regulation of molecular function 1 Informative Inherited
Biological Process (BP) regulation of hydrolase activity 1 Informative Inherited
Biological Process (BP) response to radiation 1 Informative Inherited
Biological Process (BP) response to temperature stimulus 0.003147 Informative Inherited
Biological Process (BP) animal organ morphogenesis 1 Informative Inherited
Biological Process (BP) epithelium development 0.3394 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) regulation of growth 1 Informative Inherited
Biological Process (BP) embryo development 1 Informative Inherited
Biological Process (BP) post-embryonic development 0.5146 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.4466 Informative Inherited
Biological Process (BP) cell development 0.009102 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.8696 Informative Inherited
Biological Process (BP) cell surface receptor signaling pathway 1 Informative Inherited
Biological Process (BP) proteolysis 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) behavior 0.01592 Informative Inherited
Biological Process (BP) circulatory system development 1 Informative Inherited
Biological Process (BP) regulation of transcription, DNA-templated 1 Informative Inherited
Biological Process (BP) establishment of RNA localization 0 Highly Informative Direct
Biological Process (BP) nuclear export 0.00000000000001243 Highly Informative Direct
Biological Process (BP) positive regulation of intracellular transport 0.00001681 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0 Highly Informative Direct
Biological Process (BP) mRNA metabolic process 0 Highly Informative Direct
Biological Process (BP) RNA splicing 0 Highly Informative Direct
Biological Process (BP) response to cold 0.000003735 Highly Informative Direct
Biological Process (BP) germ cell development 0 Highly Informative Direct
Biological Process (BP) regulation of RNA stability 0 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) negative regulation of translation 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) regulation of mitochondrion organization 0 Highly Informative Direct
Biological Process (BP) translational initiation 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex localization 0 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.0000000000000372 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.0000000000002399 Highly Informative Direct
Biological Process (BP) positive regulation of nucleotide metabolic process 0.00000000000875 Highly Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0.0000000001704 Highly Informative Direct
Biological Process (BP) cell maturation 0.00000001527 Highly Informative Direct
Biological Process (BP) response to amino acid 0.000000205 Highly Informative Direct
Biological Process (BP) photoperiodism 0.000005396 Highly Informative Direct
Biological Process (BP) regulation of sequence-specific DNA binding transcription factor activity 0.00001288 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0.00003191 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.00004105 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 0.0008948 Highly Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.1575 Highly Informative Inherited
Biological Process (BP) negative regulation of catabolic process 0.05596 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.5121 Highly Informative Inherited
Biological Process (BP) positive regulation of cell development 0.2782 Highly Informative Inherited
Biological Process (BP) positive regulation of nervous system development 0.6848 Highly Informative Inherited
Biological Process (BP) circadian rhythm 0.002798 Highly Informative Inherited
Biological Process (BP) response to hypoxia 0.1978 Highly Informative Inherited
Biological Process (BP) cellular response to acid chemical 0.001905 Highly Informative Inherited
Biological Process (BP) negative regulation of cell development 1 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 1 Highly Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.002558 Highly Informative Inherited
Biological Process (BP) hemopoiesis 1 Highly Informative Inherited
Biological Process (BP) histone modification 0.8671 Highly Informative Inherited
Biological Process (BP) peptidyl-lysine modification 1 Highly Informative Inherited
Biological Process (BP) macromolecule methylation 1 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.6131 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) appendage development 0.182 Highly Informative Inherited
Biological Process (BP) negative regulation of response to external stimulus 1 Highly Informative Inherited
Biological Process (BP) regulation of response to wounding 0.07473 Highly Informative Inherited
Biological Process (BP) negative regulation of growth 1 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.0244 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.004041 Highly Informative Inherited
Biological Process (BP) epithelial cell differentiation 1 Highly Informative Inherited
Biological Process (BP) cellular component assembly involved in morphogenesis 0.05069 Highly Informative Inherited
Biological Process (BP) cell division 0.2094 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.8655 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.02539 Highly Informative Inherited
Biological Process (BP) response to peptide hormone 0.42 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.007964 Highly Informative Inherited
Biological Process (BP) positive regulation of mitotic cell cycle 0.3631 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.2399 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.4909 Highly Informative Inherited
Biological Process (BP) hormone-mediated signaling pathway 0.05105 Highly Informative Inherited
Biological Process (BP) brain development 1 Highly Informative Inherited
Biological Process (BP) metamorphosis 0.009039 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.8567 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.7264 Highly Informative Inherited
Biological Process (BP) cellular response to growth factor stimulus 1 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.9666 Highly Informative Inherited
Biological Process (BP) single-organism behavior 0.004243 Highly Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0.1835 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.003385 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.04411 Highly Informative Inherited
Biological Process (BP) instar larval or pupal morphogenesis 0.002766 Highly Informative Inherited
Biological Process (BP) tube morphogenesis 0.001498 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-templated 1 Highly Informative Inherited
Biological Process (BP) regulation of nuclear division 0.7435 Highly Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle phase transition 0.5914 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.2566 Highly Informative Inherited
Biological Process (BP) angiogenesis 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) protein binding 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) transporter activity 1 Moderately Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 1 Informative Inherited
Molecular Function (MF) enzyme binding 1 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 1 Informative Inherited
Molecular Function (MF) macromolecular complex binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring one-carbon groups 1 Informative Inherited
Molecular Function (MF) mRNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.000000000001855 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0.0000000003757 Highly Informative Direct
Molecular Function (MF) chromatin binding 0.000008132 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 1 Highly Informative Inherited
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 1 Highly Informative Inherited
Molecular Function (MF) translation factor activity, RNA binding 1 Highly Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0.7151 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0000000000000161 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
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) cell projection 1 Moderately Informative Inherited
Cellular Component (CC) ribonucleoprotein granule 0 Informative Direct
Cellular Component (CC) synapse 0.9084 Informative Inherited
Cellular Component (CC) cell projection part 1 Informative Inherited
Cellular Component (CC) neuron projection 0.4335 Informative Inherited
Cellular Component (CC) cytoplasmic region 1 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.06507 Informative Inherited
Cellular Component (CC) chromosome 1 Informative Inherited
Cellular Component (CC) spliceosomal complex 0 Highly Informative Direct
Cellular Component (CC) small nuclear ribonucleoprotein complex 0 Highly Informative Direct
Cellular Component (CC) pole plasm 0.0000005676 Highly Informative Direct
Cellular Component (CC) nucleolus 0.0008059 Highly Informative Direct
Cellular Component (CC) chromatin 1 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome 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

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)muscle tissue disease0.01717InformativeInherited
Disease Ontology (DO)ischemia0.4567Highly InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Y-linked inheritance0.000005002InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0.1055Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.2114Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.2546Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature0.3425Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.3439Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.584Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.6926Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.868Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.9886Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle morphology0.02402Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.1765Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.2978Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.3337Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0.3365Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle physiology0.4917Moderately InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.5288Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the oral cavity0.54Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.6855Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of central motor function0.7874Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.9459Moderately InformativeInherited
Phenotypic Abnormality (PA)Muscular dystrophy0.0001587InformativeDirect
Phenotypic Abnormality (PA)Abnormality of circulating enzyme level0.0003244InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature of the upper limbs0.0003293InformativeDirect
Phenotypic Abnormality (PA)Abnormality of muscle fibers0.0009293InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the voice0.01458InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.01513InformativeInherited
Phenotypic Abnormality (PA)Neurological speech impairment0.04315InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the tongue0.04333InformativeInherited
Phenotypic Abnormality (PA)Abnormal pattern of respiration0.06809InformativeInherited
Phenotypic Abnormality (PA)Gait disturbance0.09221InformativeInherited
Phenotypic Abnormality (PA)Morphological abnormality of the gastrointestinal tract0.1315InformativeInherited
Phenotypic Abnormality (PA)Abnormality of reproductive system physiology0.1756InformativeInherited
Phenotypic Abnormality (PA)Abnormal emotion/affect behavior0.1758InformativeInherited
Phenotypic Abnormality (PA)Cognitive impairment0.298InformativeInherited
Phenotypic Abnormality (PA)Upper motor neuron dysfunction0.4176InformativeInherited
Phenotypic Abnormality (PA)Rimmed vacuoles0.000000001178Highly InformativeDirect
Phenotypic Abnormality (PA)Frontotemporal dementia0.0000002613Highly InformativeDirect
Phenotypic Abnormality (PA)Amyotrophic lateral sclerosis0.000000522Highly InformativeDirect
Phenotypic Abnormality (PA)Bowing of the vocal cords0.000003849Highly InformativeDirect
Phenotypic Abnormality (PA)Perseveration0.000006041Highly InformativeDirect
Phenotypic Abnormality (PA)Brisk reflexes0.00000748Highly InformativeDirect
Phenotypic Abnormality (PA)Bulbar signs0.00000748Highly InformativeDirect
Phenotypic Abnormality (PA)Disinhibition0.000009116Highly InformativeDirect
Phenotypic Abnormality (PA)Mutism0.0000131Highly InformativeDirect
Phenotypic Abnormality (PA)Aspiration0.00001851Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal lower motor neuron morphology0.00002565Highly InformativeDirect
Phenotypic Abnormality (PA)Tongue fasciculations0.00002566Highly InformativeDirect
Phenotypic Abnormality (PA)Loss of ability to walk0.00002566Highly InformativeDirect
Phenotypic Abnormality (PA)Limb-girdle muscle weakness0.00002719Highly InformativeDirect
Phenotypic Abnormality (PA)Pseudobulbar paralysis0.00002927Highly InformativeDirect
Phenotypic Abnormality (PA)Apathy0.00002978Highly InformativeDirect
Phenotypic Abnormality (PA)Elevated alkaline phosphatase0.00004208Highly InformativeDirect
Phenotypic Abnormality (PA)Personality changes0.00005223Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal anterior horn cell morphology0.00005758Highly InformativeDirect
Phenotypic Abnormality (PA)Sleep apnea0.00006703Highly InformativeDirect
Phenotypic Abnormality (PA)Postural tremor0.00007588Highly InformativeDirect
Phenotypic Abnormality (PA)Language impairment0.0000782Highly InformativeDirect
Phenotypic Abnormality (PA)Atrophy/Degeneration involving the corticospinal tracts0.0001283Highly InformativeDirect
Phenotypic Abnormality (PA)Emotional lability0.0001934Highly InformativeDirect
Phenotypic Abnormality (PA)Bulbar palsy0.0003306Highly InformativeDirect
Phenotypic Abnormality (PA)Progressive muscle weakness0.0003786Highly InformativeDirect
Phenotypic Abnormality (PA)Hoarse voice0.0006989Highly InformativeDirect
Phenotypic Abnormality (PA)Azoospermia0.000902Highly InformativeDirect
Phenotypic Abnormality (PA)Distal muscle weakness0.0009892Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal conjugate eye movement0.3823Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.2617Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.8128Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.879Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell differentiation0.7832InformativeInherited
Mammalian Phenotype (MP)premature neuronal precursor differentiation0.0004273Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0.0000000000000111Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000001402Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0002324Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.0002803Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0008694Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.002049Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant1Least InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.0004081Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.08396Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.113Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.2027Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.3381Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.5423Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.749Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant1Moderately InformativeInherited
Worm Phenotype (WP)sterile progeny1Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant0.0000000000307InformativeDirect
Worm Phenotype (WP)sick0.0000002368InformativeDirect
Worm Phenotype (WP)maintenance of gene silencing variant0.0000265InformativeDirect
Worm Phenotype (WP)brood size variant0.00002973InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.0006417InformativeDirect
Worm Phenotype (WP)cell number increased0.001679InformativeInherited
Worm Phenotype (WP)VPC competence variant0.007582InformativeInherited
Worm Phenotype (WP)vulva development variant0.01659InformativeInherited
Worm Phenotype (WP)egg laying variant0.07507InformativeInherited
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.1669InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.387InformativeInherited
Worm Phenotype (WP)cell proliferation increased4.286e-16Highly InformativeDirect
Worm Phenotype (WP)sex determination variant0.0000001162Highly InformativeDirect
Worm Phenotype (WP)dendrite development variant0.0000004324Highly InformativeDirect
Worm Phenotype (WP)embryonic lethal late emb0.000001771Highly InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.00007079Highly InformativeDirect
Worm Phenotype (WP)RNA processing variant0.00009741Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.0001352Highly InformativeDirect
Worm Phenotype (WP)P granule defective0.06277Highly InformativeInherited
Worm Phenotype (WP)mRNA expression variant0.8104Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.00000000000001661Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0.0000001945Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0000002177Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.000001485Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0.00001389Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0.0001264Least InformativeDirect
Xenopus ANatomical entity (XAN)head0.004295Least InformativeInherited
Xenopus ANatomical entity (XAN)nervous system0.01096Least InformativeInherited
Xenopus ANatomical entity (XAN)egg0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)embryonic structure0.0000000000001096Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0.000000002391Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.0000002987Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.0000005988Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0.000006229Moderately InformativeDirect
Xenopus ANatomical entity (XAN)female genitalia0.00004269Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.0005021Moderately InformativeDirect
Xenopus ANatomical entity (XAN)brain0.001882Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.00225Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system0.00000000001168InformativeDirect
Xenopus ANatomical entity (XAN)heart0.00000000004911InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0.00000002787InformativeDirect
Xenopus ANatomical entity (XAN)intestine0.0000009425InformativeDirect
Xenopus ANatomical entity (XAN)spleen0.00000131InformativeDirect
Xenopus ANatomical entity (XAN)lung0.000001449InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.000002173InformativeDirect
Xenopus ANatomical entity (XAN)skeletal muscle0.000004446InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.00015InformativeDirect
Xenopus ANatomical entity (XAN)limb0.0002874InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.000598InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.0007019InformativeDirect
Xenopus ANatomical entity (XAN)oocyte0.0000000591Highly InformativeDirect
Xenopus ANatomical entity (XAN)stomach0.0000001488Highly InformativeDirect
Xenopus ANatomical entity (XAN)marginal zone0.001896Highly InformativeInherited

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 cell0.00000008502Least InformativeDirect
Plant ANatomical entity (PAN)seed0.000006117Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0.0001148Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0.002602Least InformativeInherited
Plant ANatomical entity (PAN)leaf0.005038Least InformativeInherited
Plant ANatomical entity (PAN)inflorescence0.009955Least InformativeInherited
Plant ANatomical entity (PAN)whole plant0.02104Least InformativeInherited
Plant ANatomical entity (PAN)flower0.1691Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure0.2Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis0.2113Least InformativeInherited
Plant ANatomical entity (PAN)gamete0.00005279InformativeDirect
Plant ANatomical entity (PAN)cultured plant cell0.0001433Highly InformativeDirect
Plant ANatomical entity (PAN)bud0.03185Highly InformativeInherited
Plant structure DEvelopment stage (PDE)D bilateral stage0.00001301Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.00004974Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0.0001061Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0.000115Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.02824Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.00000000003585Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.00000008051Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.002101Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.01861Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.04386Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)RNA helicase0.00000000000000791InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000003204InformativeDirect
Enzyme Commission (EC)RNA uridylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0Highly InformativeDirect
Enzyme Commission (EC)Polynucleotide adenylyltransferase2.466e-16Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0.0000000000003126Highly 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 processProtein transport1Moderately InformativeInherited
Biological processmRNA processing0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processBiological rhythms2.435e-16InformativeDirect
Biological processMeiosis0.000000000001723InformativeDirect
Biological processrRNA processing0.00001392InformativeDirect
Biological processRibosome biogenesis0.00006374InformativeDirect
Biological processProtein biosynthesis0.000316InformativeDirect
Biological processmRNA transport0Highly InformativeDirect
Biological processNonsense-mediated mRNA decay0Highly InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis0.00001911Highly InformativeDirect
Biological processTranslocation0.04513Highly InformativeInherited
Cellular componentNucleus0Least InformativeDirect
Cellular componentSpliceosome0InformativeDirect
Cellular componentChromosome0.0000001242InformativeDirect
Coding sequence diversityAlternative splicing0Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0.000000000009773Moderately InformativeDirect
DomainZinc-finger0.00001355Moderately InformativeDirect
DomainWD repeat0.000002302InformativeDirect
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 regulator0.000003366InformativeDirect
Post-translational modificationRotamase0.0000002253Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately 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

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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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]