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 (968) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 98,102 81,527 138
Proteins 71,230 59,803 130


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 process4.455e-060Least InformativeDirect
Biological Process (BP)cellular aromatic compound metabolic process5.171e-060Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process6.618e-060Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process2.934e-050Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process0.00034170Least InformativeDirect
Biological Process (BP)regulation of cellular process0.43990.05121Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.068130Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)multicellular organismal process0.65691Least InformativeInherited
Biological Process (BP)localization0.35071Least InformativeInherited
Biological Process (BP)single-organism cellular process0.82741Least InformativeInherited
Biological Process (BP)gene expression6.167e-150Moderately InformativeDirect
Biological Process (BP)RNA metabolic process9.44e-140Moderately InformativeDirect
Biological Process (BP)organic substance transport0.038320.5861Moderately InformativeInherited
Biological Process (BP)regulation of localization0.0082781Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.20.3701Moderately InformativeInherited
Biological Process (BP)reproduction0.12820.0001214Moderately InformativeInherited
Biological Process (BP)cellular localization0.031320.1091Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.14310Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.50670.009514Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.52081Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.74591Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.0090080.002491Moderately InformativeInherited
Biological Process (BP)RNA processing2.929e-100InformativeDirect
Biological Process (BP)cytoplasmic transport8.236e-051.507e-11InformativeDirect
Biological Process (BP)posttranscriptional regulation of gene expression0.0002670InformativeDirect
Biological Process (BP)nitrogen compound transport0.00045566.751e-08InformativeDirect
Biological Process (BP)positive regulation of transport7.62e-061InformativeInherited
Biological Process (BP)regulation of intracellular transport4.034e-070.007037InformativeInherited
Biological Process (BP)sexual reproduction0.0019190InformativeInherited
Biological Process (BP)multicellular organismal reproductive process0.0024413.666e-12InformativeInherited
Biological Process (BP)single organism reproductive process0.003151.127e-13InformativeInherited
Biological Process (BP)establishment of RNA localization1.103e-110Highly InformativeDirect
Biological Process (BP)nuclear export4.195e-110Highly InformativeDirect
Biological Process (BP)regulation of nucleocytoplasmic transport5.853e-100.0003341Highly InformativeDirect
Biological Process (BP)positive regulation of intracellular transport1.637e-094.845e-05Highly InformativeDirect
Biological Process (BP)nucleobase-containing compound transport8.871e-090Highly InformativeDirect
Biological Process (BP)mRNA processing1.219e-060Highly InformativeDirect
Biological Process (BP)RNA splicing3.65e-060Highly InformativeDirect
Biological Process (BP)regulation of translation8.266e-050Highly InformativeDirect
Biological Process (BP)response to cold0.00079522.783e-05Highly InformativeDirect
Molecular Function (MF)binding3.268e-050Least InformativeDirect
Molecular Function (MF)nucleic acid binding00Moderately InformativeDirect
Molecular Function (MF)RNA binding00InformativeDirect
Cellular Component (CC)protein complex11Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.019660Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.029820.04845Least InformativeInherited
Cellular Component (CC)nuclear part1.207e-060Moderately InformativeDirect
Cellular Component (CC)ribonucleoprotein complex1.791e-060Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.03020Moderately InformativeInherited
Cellular Component (CC)nucleoplasm part0.68211InformativeInherited
Cellular Component (CC)nuclear body1.342e-060Highly InformativeDirect
Cellular Component (CC)RNA cap binding complex2.296e-061.767e-05Highly InformativeDirect
Cellular Component (CC)spliceosomal complex9.086e-050Highly 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 0.05121 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 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) developmental process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 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) reproduction 0.0001214 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 1.511e-05 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000183 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 2.44e-05 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.4358 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9993 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) macromolecule localization 0.002491 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.1091 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.3316 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.5861 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 0.9814 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.9721 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.05761 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.009514 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.6969 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 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) response to abiotic stimulus 0.3701 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9561 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) heterocycle 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) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) RNA processing 0 Informative Direct
Biological Process (BP) cytoplasmic transport 1.507e-11 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) nitrogen compound transport 6.751e-08 Informative Direct
Biological Process (BP) cellular process involved in reproduction 3.22e-12 Informative Direct
Biological Process (BP) sexual reproduction 0 Informative Direct
Biological Process (BP) multicellular organismal reproductive process 3.666e-12 Informative Direct
Biological Process (BP) single organism reproductive process 1.127e-13 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 0 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 9.056e-09 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 9.663e-07 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 7.838e-05 Informative Direct
Biological Process (BP) energy derivation by oxidation of organic compounds 0.0001888 Informative Direct
Biological Process (BP) response to oxidative stress 0.0003194 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0.8316 Informative Inherited
Biological Process (BP) regulation of purine nucleotide metabolic process 0.01039 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.5282 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.408 Informative Inherited
Biological Process (BP) regulation of cell development 1 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.2252 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) response to cytokine stimulus 1 Informative Inherited
Biological Process (BP) response to organonitrogen compound 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) cardiovascular system development 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.8988 Informative Inherited
Biological Process (BP) regulation of cell cycle 1 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.9903 Informative Inherited
Biological Process (BP) response to light stimulus 0.9316 Informative Inherited
Biological Process (BP) negative regulation of developmental process 1 Informative Inherited
Biological Process (BP) proteolysis 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.007037 Informative Inherited
Biological Process (BP) single-organism behavior 0.9058 Informative Inherited
Biological Process (BP) locomotion 1 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.9456 Informative Inherited
Biological Process (BP) negative regulation of gene expression 1 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.8532 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.7944 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.3592 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8671 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.9217 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.09086 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) translation 0.04489 Informative Inherited
Biological Process (BP) transcription, DNA-dependent 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 Highly Informative Direct
Biological Process (BP) regulation of nucleocytoplasmic transport 0.0003341 Highly Informative Direct
Biological Process (BP) positive regulation of intracellular transport 4.845e-05 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 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) regulation of translation 0 Highly Informative Direct
Biological Process (BP) response to cold 2.783e-05 Highly Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 4.706e-10 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) ribonucleoprotein complex subunit organization 0 Highly Informative Direct
Biological Process (BP) electron transport chain 3.746e-15 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 5.586e-15 Highly Informative Direct
Biological Process (BP) gene silencing 2.308e-13 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 4.169e-10 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 1.043e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 1.595e-05 Highly Informative Direct
Biological Process (BP) developmental maturation 2.524e-05 Highly Informative Direct
Biological Process (BP) response to acid 7.185e-05 Highly Informative Direct
Biological Process (BP) positive regulation of organelle organization 0.000106 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0002058 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0007154 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) response to hypoxia 0.07344 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular catabolic process 0.02844 Highly Informative Inherited
Biological Process (BP) placenta development 0.08562 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 1 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.1371 Highly Informative Inherited
Biological Process (BP) cellular component assembly involved in morphogenesis 0.9026 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.8179 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.001367 Highly Informative Inherited
Biological Process (BP) cell division 0.05029 Highly Informative Inherited
Biological Process (BP) stem cell development 0.01952 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.8872 Highly Informative Inherited
Biological Process (BP) locomotory behavior 0.673 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.0231 Highly Informative Inherited
Biological Process (BP) cellular response to organic cyclic compound 0.08321 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 1 Highly Informative Inherited
Biological Process (BP) adult behavior 0.5271 Highly Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0.8942 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.4774 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.1289 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.3789 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.8832 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.0158 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-dependent 1 Highly Informative Inherited
Biological Process (BP) regulation of mitosis 0.2062 Highly Informative Inherited
Biological Process (BP) transcription from RNA polymerase II promoter 0.294 Highly Informative Inherited
Biological Process (BP) multi-organism behavior 0.04886 Highly Informative Inherited
Biological Process (BP) RNA phosphodiester bond hydrolysis, endonucleolytic 0.1356 Highly Informative Inherited
Biological Process (BP) rRNA processing 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
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) RNA binding 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0.8102 Informative Inherited
Molecular Function (MF) phosphatase activity 0.89 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring one-carbon groups 1 Informative Inherited
Molecular Function (MF) chromatin binding 0.395 Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 1 Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0 Highly Informative Direct
Molecular Function (MF) ribonucleoprotein complex binding 0.1718 Highly Informative Inherited
Molecular Function (MF) S-adenosylmethionine-dependent methyltransferase activity 1 Highly Informative Inherited
Molecular Function (MF) adenylyltransferase activity 0.01328 Highly Informative Inherited
Molecular Function (MF) translation factor activity, nucleic acid binding 1 Highly Informative Inherited
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 1 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.04845 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 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) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0 Moderately Informative Direct
Cellular Component (CC) nucleolus 1.073e-08 Informative Direct
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) chromosome 1 Informative Inherited
Cellular Component (CC) nuclear body 0 Highly Informative Direct
Cellular Component (CC) RNA cap binding complex 1.767e-05 Highly Informative Direct
Cellular Component (CC) spliceosomal complex 0 Highly Informative Direct
Cellular Component (CC) small nuclear ribonucleoprotein complex 7.268e-15 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 4.535e-08 Highly Informative Direct
Cellular Component (CC) chromatin 0.2273 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 groups4.189e-11Least InformativeDirect
Enzyme Commission (EC)Isomerases2.211e-06Least 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)Methyltransferases9.651e-15Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an4.046e-08Moderately 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 ribonuclease4.272e-14Highly 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 vasculature0.3309Moderately InformativeInherited
Phenotypic Abnormality (PA)Arteriovenous malformation0.0002412Highly 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 variant1.008e-05Least 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 variant4.967e-09Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant6.171e-05Moderately 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 variant3.456e-09InformativeDirect
Worm Phenotype (WP)sick3.371e-08InformativeDirect
Worm Phenotype (WP)brood size variant9.047e-06InformativeDirect
Worm Phenotype (WP)alimentary system development variant5.507e-05InformativeDirect
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 variant4.306e-06Highly 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)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0.4404Least InformativeInherited
Fly Anatomy (FA)developing material anatomical entity0.7942Moderately InformativeInherited
Fly Anatomy (FA)ganglion mother cell0.0009868InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)cell2.35e-12Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo4.797e-11Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue1.483e-05Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0.0001259Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0.0008201Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.002246Least InformativeInherited
Xenopus ANatomical entity (XAN)central nervous system0.007655Least InformativeInherited
Xenopus ANatomical entity (XAN)gonad0.008062Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.01417Least InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system0.01743Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure1.483e-14Moderately InformativeDirect
Xenopus ANatomical entity (XAN)gamete9.843e-14Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system9.521e-07Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm1.256e-06Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure1.452e-05Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm1.619e-05Moderately InformativeDirect
Xenopus ANatomical entity (XAN)intestine4.576e-05Moderately InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0.0001195Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.0008907Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ovary0.0009564Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0.2843Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro3.707e-15InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system2.892e-09InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region1.612e-07InformativeDirect
Xenopus ANatomical entity (XAN)heart3.902e-07InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain1.114e-05InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord1.963e-05InformativeDirect
Xenopus ANatomical entity (XAN)lung3.753e-05InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space4.128e-05InformativeDirect
Xenopus ANatomical entity (XAN)skeletal muscle0.0001104InformativeDirect
Xenopus ANatomical entity (XAN)hematological system0.000141InformativeDirect
Xenopus ANatomical entity (XAN)spleen0.0004052InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0.0007178InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.0007193InformativeDirect
Xenopus ANatomical entity (XAN)forebrain0.0008986InformativeDirect
Xenopus ANatomical entity (XAN)vestibuloauditory system0.003877InformativeInherited
Xenopus ANatomical entity (XAN)mesoderm0.02156InformativeInherited
Xenopus ANatomical entity (XAN)anatomical direction0.3277InformativeInherited
Xenopus ANatomical entity (XAN)stomach4.321e-06Highly InformativeDirect
Xenopus ANatomical entity (XAN)ventral blood island4.826e-05Highly InformativeDirect
Xenopus ANatomical entity (XAN)otic vesicle0.0001626Highly InformativeDirect
Xenopus ANatomical entity (XAN)intermediate mesoderm0.0002576Highly 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 cell7.607e-08Least InformativeDirect
Plant ANatomical entity (PAN)seed5.02e-06Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll9.532e-05Least 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)gamete6.354e-05InformativeDirect
Plant ANatomical entity (PAN)cultured plant cell0.000146Highly InformativeDirect
Plant ANatomical entity (PAN)bud0.03099Highly InformativeInherited
Plant structure DEvelopment stage (PDE)D bilateral stage1.19e-05Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage4.674e-05Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage9.105e-05Least 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)Hydrolases0.0285Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups4.836e-11Moderately InformativeDirect
Enzyme Commission (EC)Isomerases5.883e-07Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0.01066Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.02274Moderately InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.03443Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect
Enzyme Commission (EC)RNA helicase9.214e-13InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters4.628e-08InformativeDirect
Enzyme Commission (EC)Polynucleotide adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)RNA uridylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease2.285e-13Highly 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 regulation0.0002764Moderately InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processmRNA splicing0InformativeDirect
Biological processTranslation regulation0InformativeDirect
Biological processMeiosis6.28e-14InformativeDirect
Biological processRibosome biogenesis1.797e-06InformativeDirect
Biological processProtein biosynthesis6.225e-05InformativeDirect
Biological processrRNA processing7.208e-05InformativeDirect
Biological processmRNA transport0Highly InformativeDirect
Biological processNonsense-mediated mRNA decay0Highly InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processSpermatogenesis1.548e-05Highly InformativeDirect
Biological processTranslocation0.06325Highly InformativeInherited
Cellular componentNucleus0Least InformativeDirect
Cellular componentSpliceosome0InformativeDirect
Cellular componentChromosome1.65e-07InformativeDirect
Coding sequence diversityAlternative splicing0Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil9.667e-09Moderately InformativeDirect
DomainZinc-finger4.814e-05Moderately InformativeDirect
DomainWD repeat6.298e-07InformativeDirect
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 regulator1.185e-05InformativeDirect
Post-translational modificationRotamase1.893e-06Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationMethylation1.354e-15Moderately 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) · 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 ]