SUPERFAMILY 1.75 HMM library and genome assignments server


RNase A-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   RNase A-like [ 54075]
Superfamily:   RNase A-like [ 54076]
Families:   Ribonuclease A-like [ 54077] (8)


Superfamily statistics
Genomes (61) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 619 1,267 61
Proteins 619 1,256 61


Functional annotation
General category Information
Detailed category RNA processing

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 process08.655e-14Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process1.72e-151.356e-11Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process01.335e-09Least InformativeDirect
Biological Process (BP)heterocycle metabolic process05.118e-14Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process07.622e-13Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.48860.1902Least InformativeInherited
Biological Process (BP)response to stimulus3.156e-080.001401Least InformativeInherited
Biological Process (BP)regulation of cellular process0.1130.1451Least InformativeInherited
Biological Process (BP)regulation of metabolic process9.742e-060.1437Least InformativeInherited
Biological Process (BP)biosynthetic process0.047480.03295Least InformativeInherited
Biological Process (BP)single-organism cellular process0.20910.3384Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.00017560.007498Least InformativeInherited
Biological Process (BP)developmental process4.685e-060.0115Least InformativeInherited
Biological Process (BP)multicellular organismal process1.523e-050.02128Least InformativeInherited
Biological Process (BP)organelle organization1.351e-070.0005548Moderately InformativeDirect
Biological Process (BP)lipid biosynthetic process8.104e-151.784e-14Moderately InformativeDirect
Biological Process (BP)response to abiotic stimulus1.383e-052.296e-05Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis8.983e-081.416e-07Moderately InformativeDirect
Biological Process (BP)RNA metabolic process00Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.00048290.0006032Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.00010590.000527Moderately InformativeDirect
Biological Process (BP)regulation of localization2.84e-120Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process2.306e-050.0004821Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization8.975e-132.437e-07Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis1.035e-102.959e-05Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function6.509e-151.226e-10Moderately InformativeDirect
Biological Process (BP)cellular lipid metabolic process3.148e-071.436e-08Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process0.00029150.0004443Moderately InformativeDirect
Biological Process (BP)positive regulation of cellular process1.69e-081.261e-07Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity2.327e-124.295e-09Moderately InformativeDirect
Biological Process (BP)multi-organism process0.0080690.05809Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.001120.002022Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.95461Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process8.648e-090.00102Moderately InformativeInherited
Biological Process (BP)gene expression0.00047420.002218Moderately InformativeInherited
Biological Process (BP)transcription, DNA-dependent9.649e-155.838e-11InformativeDirect
Biological Process (BP)protein complex assembly05.118e-14InformativeDirect
Biological Process (BP)cytoskeleton organization02.491e-11InformativeDirect
Biological Process (BP)positive regulation of cell proliferation05.309e-09InformativeDirect
Biological Process (BP)actin filament-based process02.225e-13InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly00InformativeDirect
Biological Process (BP)glycerolipid metabolic process00InformativeDirect
Biological Process (BP)anatomical structure formation involved in morphogenesis08.816e-11InformativeDirect
Biological Process (BP)regulation of secretion00InformativeDirect
Biological Process (BP)positive regulation of transport09.597e-12InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity00InformativeDirect
Biological Process (BP)regulation of establishment of protein localization00InformativeDirect
Biological Process (BP)cardiovascular system development3.321e-151.8e-11InformativeDirect
Biological Process (BP)nucleic acid phosphodiester bond hydrolysis00InformativeDirect
Biological Process (BP)defense response0.94730.9057InformativeInherited
Biological Process (BP)response to other organism0.032340.04048InformativeInherited
Biological Process (BP)response to nutrient levels8.074e-050.001273InformativeInherited
Biological Process (BP)angiogenesis00Highly InformativeDirect
Biological Process (BP)response to hypoxia1.045e-135.284e-14Highly InformativeDirect
Biological Process (BP)acylglycerol metabolic process00Highly InformativeDirect
Biological Process (BP)actin filament organization00Highly InformativeDirect
Biological Process (BP)negative regulation of cell proliferation00Highly InformativeDirect
Biological Process (BP)cellular response to starvation4.012e-064.349e-05Highly InformativeDirect
Biological Process (BP)regulation of phospholipase activity00Highly InformativeDirect
Biological Process (BP)defense response to bacterium9.506e-058.167e-05Highly InformativeDirect
Biological Process (BP)regulation of smooth muscle cell proliferation00Highly InformativeDirect
Biological Process (BP)positive regulation of epithelial cell proliferation00Highly InformativeDirect
Biological Process (BP)positive regulation of protein secretion00Highly InformativeDirect
Biological Process (BP)protein polymerization00Highly InformativeDirect
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)binding0.01930.7954Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)anion binding3.624e-132.625e-11Moderately InformativeDirect
Molecular Function (MF)cation binding1.853e-122.482e-12Moderately InformativeDirect
Molecular Function (MF)nuclease activity00InformativeDirect
Molecular Function (MF)receptor binding03.324e-14InformativeDirect
Molecular Function (MF)cytoskeletal protein binding03.081e-15InformativeDirect
Molecular Function (MF)transition metal ion binding00InformativeDirect
Molecular Function (MF)carbohydrate derivative binding00InformativeDirect
Molecular Function (MF)sulfur compound binding00InformativeDirect
Molecular Function (MF)actin binding00Highly InformativeDirect
Molecular Function (MF)copper ion binding00Highly InformativeDirect
Molecular Function (MF)heparin binding00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle5.112e-080.0003265Least InformativeDirect
Cellular Component (CC)protein complex1.119e-060.0007672Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00014020.03981Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)extracellular region part00Moderately InformativeDirect
Cellular Component (CC)nuclear part7.509e-111.29e-05Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen4.498e-115.394e-06Moderately InformativeDirect
Cellular Component (CC)nucleolus08.179e-12InformativeDirect
Cellular Component (CC)extracellular matrix00InformativeDirect
Cellular Component (CC)proteinaceous extracellular matrix01.362e-09Highly InformativeDirect
Cellular Component (CC)extracellular matrix part00Highly 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) cellular aromatic compound metabolic process 8.655e-14 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 1.356e-11 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 1.335e-09 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 5.118e-14 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 7.622e-13 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.1451 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1902 Least Informative Inherited
Biological Process (BP) response to stimulus 0.001401 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3384 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1437 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.03295 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.007498 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.02128 Least Informative Inherited
Biological Process (BP) developmental process 0.0115 Least Informative Inherited
Biological Process (BP) organelle organization 0.0005548 Moderately Informative Direct
Biological Process (BP) lipid biosynthetic process 1.784e-14 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 2.296e-05 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 1.416e-07 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0006032 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.000527 Moderately Informative Direct
Biological Process (BP) regulation of localization 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0004821 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 2.437e-07 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 2.959e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 1.226e-10 Moderately Informative Direct
Biological Process (BP) cellular lipid metabolic process 1.436e-08 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.0004443 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.261e-07 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 4.295e-09 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.05809 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.002022 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.00102 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2712 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002218 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-dependent 5.838e-11 Informative Direct
Biological Process (BP) protein complex assembly 5.118e-14 Informative Direct
Biological Process (BP) cytoskeleton organization 2.491e-11 Informative Direct
Biological Process (BP) positive regulation of cell proliferation 5.309e-09 Informative Direct
Biological Process (BP) biological adhesion 0.0001216 Informative Direct
Biological Process (BP) actin filament-based process 2.225e-13 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0 Informative Direct
Biological Process (BP) regulation of locomotion 7.823e-05 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 8.816e-11 Informative Direct
Biological Process (BP) regulation of secretion 0 Informative Direct
Biological Process (BP) positive regulation of transport 9.597e-12 Informative Direct
Biological Process (BP) regulation of cellular component movement 5.37e-05 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0 Informative Direct
Biological Process (BP) regulation of establishment of protein localization 0 Informative Direct
Biological Process (BP) cardiovascular system development 1.8e-11 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0 Informative Direct
Biological Process (BP) defense response 0.9057 Informative Inherited
Biological Process (BP) response to other organism 0.04048 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001273 Informative Inherited
Biological Process (BP) reproductive system development 0.1524 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.3433 Informative Inherited
Biological Process (BP) angiogenesis 0 Highly Informative Direct
Biological Process (BP) response to hypoxia 5.284e-14 Highly Informative Direct
Biological Process (BP) acylglycerol metabolic process 0 Highly Informative Direct
Biological Process (BP) actin filament organization 0 Highly Informative Direct
Biological Process (BP) cell adhesion 0.0002989 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0 Highly Informative Direct
Biological Process (BP) gonad development 0.0003002 Highly Informative Direct
Biological Process (BP) cellular response to starvation 4.349e-05 Highly Informative Direct
Biological Process (BP) regulation of phospholipase activity 0 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 1.834e-06 Highly Informative Direct
Biological Process (BP) defense response to bacterium 8.167e-05 Highly Informative Direct
Biological Process (BP) regulation of smooth muscle cell proliferation 0 Highly Informative Direct
Biological Process (BP) positive regulation of epithelial cell proliferation 0 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0 Highly Informative Direct
Biological Process (BP) protein polymerization 0 Highly Informative Direct
Biological Process (BP) regulation of reproductive process 7.454e-07 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.7954 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) anion binding 2.625e-11 Moderately Informative Direct
Molecular Function (MF) cation binding 2.482e-12 Moderately Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) receptor binding 3.324e-14 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 3.081e-15 Informative Direct
Molecular Function (MF) transition metal ion binding 0 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0 Informative Direct
Molecular Function (MF) sulfur compound binding 0 Informative Direct
Molecular Function (MF) actin binding 0 Highly Informative Direct
Molecular Function (MF) copper ion binding 0 Highly Informative Direct
Molecular Function (MF) heparin binding 0 Highly Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0003265 Least Informative Direct
Cellular Component (CC) protein complex 0.0007672 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.03981 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 1.29e-05 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 5.394e-06 Moderately Informative Direct
Cellular Component (CC) nucleolus 8.179e-12 Informative Direct
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.0008164 Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 1.362e-09 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing other than 5'-phosphom0Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processAngiogenesis0InformativeDirect
Biological processStress response3.259e-11InformativeDirect
Biological processCell adhesion1.404e-05InformativeDirect
Biological processFertilization5.047e-14Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentLysosome0InformativeDirect
Cellular componentExtracellular matrix4.43e-05InformativeDirect
Cellular componentBasement membrane0Highly InformativeDirect
Coding sequence diversityPolymorphism0.0007161Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationDevelopmental protein1.245e-12Moderately InformativeDirect
Post-translational modificationEndonuclease0InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationPyrrolidone carboxylic acid0InformativeDirect
Post-translational modificationNitration0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001427 SSF54076 Protein matches
Abstract Pancreatic ribonucleases (RNAse) are pyrimidine-specific endonucleases found in high quantity in the pancreas of certain mammals and of some reptiles [PubMed3940901]. Specifically, the enzymes are involved in endonucleolytic cleavage of 3'-phosphomononucleotides and 3'-phosphooligonucleotides ending in C-P or U-P with 2',3'-cyclic phosphate intermediates. Ribonuclease can unwind the DNA helix by complexing with single-stranded DNA; the complex arises by an extended multi-site cation-anion interaction between lysine and arginine residues of the enzyme and phosphate groups of the nucleotides. Other proteins belonging to the pancreatic RNAse family include: bovine seminal vesicle and brain ribonucleases; kidney non-secretory ribonucleases [PubMed2734298]; liver-type ribonucleases [PubMed2611266]; angiogenin, which induces vascularisation of normal and malignant tissues; eosinophil cationic protein [PubMed2473157], a cytotoxin and helminthotoxin with ribonuclease activity; and frog liver ribonuclease and frog sialic acid-binding lectin. The sequence of pancreatic RNases contains four conserved disulphide bonds and three amino acid residues involved in the catalytic activity.

InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 16 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 RNase A-like domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 16 hidden Markov models representing the RNase A-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]