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 process00.0000000000001333Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process0.0000000000000032610.00000000002181Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00.000000001812Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00.00000000000007996Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.000000000001205Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.51060.1972Least InformativeInherited
Biological Process (BP)response to stimulus0.00000004490.001843Least InformativeInherited
Biological Process (BP)regulation of cellular process0.11360.1444Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.0000096580.1468Least InformativeInherited
Biological Process (BP)biosynthetic process0.050790.03474Least InformativeInherited
Biological Process (BP)single-organism cellular process0.20260.334Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.00020910.008954Least InformativeInherited
Biological Process (BP)developmental process0.00000510.01271Least InformativeInherited
Biological Process (BP)multicellular organismal process0.000016180.02368Least InformativeInherited
Biological Process (BP)lipid metabolic process0.0000019540.0000001777Moderately InformativeDirect
Biological Process (BP)organelle organization0.00000012830.000543Moderately InformativeDirect
Biological Process (BP)response to abiotic stimulus0.000014420.00002501Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis0.000000093120.0000001399Moderately InformativeDirect
Biological Process (BP)RNA metabolic process00Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.00059190.0008281Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.00013330.0007226Moderately InformativeDirect
Biological Process (BP)regulation of localization0.0000000000044970.000000000000001938Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.000021230.0004719Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.0000000000010880.0000002595Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis0.0000000001450.00003178Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function0.0000000000000063980.0000000001399Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process0.00037380.0006217Moderately InformativeDirect
Biological Process (BP)positive regulation of cellular process0.000000026360.0000002064Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.0000000000023340.00000000546Moderately InformativeDirect
Biological Process (BP)multi-organism process0.0096730.0685Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.0013370.00261Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.95611Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.000000012280.001181Moderately InformativeInherited
Biological Process (BP)gene expression0.00044920.002197Moderately InformativeInherited
Biological Process (BP)transcription, DNA-dependent0.00000000000000950.00000000005605InformativeDirect
Biological Process (BP)cytoskeleton organization00.00000000002798InformativeDirect
Biological Process (BP)response to bacterium0.000022390.0002206InformativeDirect
Biological Process (BP)actin filament-based process00.0000000000002131InformativeDirect
Biological Process (BP)regulation of protein localization00.000014InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly00InformativeDirect
Biological Process (BP)regulation of cell proliferation0.0000000000000032610.0000000001185InformativeDirect
Biological Process (BP)glycerolipid metabolic process00InformativeDirect
Biological Process (BP)anatomical structure formation involved in morphogenesis00.00000000009681InformativeDirect
Biological Process (BP)regulation of secretion00InformativeDirect
Biological Process (BP)positive regulation of transport00.000000000009216InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity00InformativeDirect
Biological Process (BP)cardiovascular system development0.0000000000000032610.000000000018InformativeDirect
Biological Process (BP)nucleic acid phosphodiester bond hydrolysis00InformativeDirect
Biological Process (BP)defense response0.94630.897InformativeInherited
Biological Process (BP)response to nutrient levels0.00010040.001624InformativeInherited
Biological Process (BP)angiogenesis00Highly InformativeDirect
Biological Process (BP)response to hypoxia0.00000000000014820.00000000000006719Highly 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 starvation0.0000050960.00005667Highly InformativeDirect
Biological Process (BP)regulation of phospholipase activity00Highly InformativeDirect
Biological Process (BP)defense response to bacterium0.000097880.00008665Highly 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)binding0.024160.8359Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)anion binding0.00000000000051640.00000000003744Moderately InformativeDirect
Molecular Function (MF)cation binding0.0000000000040320.000000000004433Moderately InformativeDirect
Molecular Function (MF)nuclease activity00InformativeDirect
Molecular Function (MF)receptor binding00.00000000000004281InformativeDirect
Molecular Function (MF)cytoskeletal protein binding00.000000000000003078InformativeDirect
Molecular Function (MF)carbohydrate derivative binding00InformativeDirect
Molecular Function (MF)sulfur compound binding00InformativeDirect
Molecular Function (MF)copper ion binding00Highly InformativeDirect
Molecular Function (MF)heparin binding00Highly InformativeDirect
Cellular Component (CC)intracellular non-membrane-bounded organelle0.000000052040.0003456Least InformativeDirect
Cellular Component (CC)protein complex0.0000012710.000852Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00015130.04182Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)extracellular region part00Moderately InformativeDirect
Cellular Component (CC)nuclear part0.00000000007740.00001269Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.000000000046260.00000526Moderately InformativeDirect
Cellular Component (CC)extracellular matrix00InformativeDirect
Cellular Component (CC)proteinaceous extracellular matrix00.000000001695Highly 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 0.0000000000001333 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00000000002181 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.000000001812 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00000000000007996 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.000000000001205 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.1444 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1972 Least Informative Inherited
Biological Process (BP) response to stimulus 0.001843 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.334 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1468 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.03474 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.008954 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.02368 Least Informative Inherited
Biological Process (BP) developmental process 0.01271 Least Informative Inherited
Biological Process (BP) lipid metabolic process 0.0000001777 Moderately Informative Direct
Biological Process (BP) organelle organization 0.000543 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.00002501 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.0000001399 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0008281 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0007226 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.000000000000001938 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0004719 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000002595 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.00003178 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0000000001399 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.0006217 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0000002064 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.00000000546 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0685 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.00261 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 0.001181 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2794 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002197 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-dependent 0.00000000005605 Informative Direct
Biological Process (BP) cytoskeleton organization 0.00000000002798 Informative Direct
Biological Process (BP) response to bacterium 0.0002206 Informative Direct
Biological Process (BP) biological adhesion 0.0001298 Informative Direct
Biological Process (BP) actin filament-based process 0.0000000000002131 Informative Direct
Biological Process (BP) regulation of protein localization 0.000014 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0 Informative Direct
Biological Process (BP) regulation of locomotion 0.00007601 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000000001185 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00000000009681 Informative Direct
Biological Process (BP) regulation of secretion 0 Informative Direct
Biological Process (BP) positive regulation of transport 0.000000000009216 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.00005148 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0 Informative Direct
Biological Process (BP) cardiovascular system development 0.000000000018 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0 Informative Direct
Biological Process (BP) defense response 0.897 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001624 Informative Inherited
Biological Process (BP) reproductive system development 0.1534 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.3454 Informative Inherited
Biological Process (BP) angiogenesis 0 Highly Informative Direct
Biological Process (BP) response to hypoxia 0.00000000000006719 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 0.000285 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0 Highly Informative Direct
Biological Process (BP) gonad development 0.000302 Highly Informative Direct
Biological Process (BP) cellular response to starvation 0.00005667 Highly Informative Direct
Biological Process (BP) regulation of phospholipase activity 0 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.000001878 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.00008665 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 0.0000007405 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.8359 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00000000003744 Moderately Informative Direct
Molecular Function (MF) cation binding 0.000000000004433 Moderately Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) receptor binding 0.00000000000004281 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.000000000000003078 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0 Informative Direct
Molecular Function (MF) sulfur compound binding 0 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 0.0003456 Least Informative Direct
Cellular Component (CC) protein complex 0.000852 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.04182 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 0.00001269 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.00000526 Moderately Informative Direct
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.0008187 Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.000000001695 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

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)alimentary tract and metabolism0Least InformativeDirect
Drugbank ATC_code (DB)citric acid0Highly InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processAngiogenesis0InformativeDirect
Biological processStress response0.00000000003498InformativeDirect
Biological processCell adhesion0.00001412InformativeDirect
Biological processFertilization0.00000000000005028Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentLysosome0InformativeDirect
Cellular componentExtracellular matrix0.00004399InformativeDirect
Cellular componentBasement membrane0Highly InformativeDirect
Coding sequence diversityPolymorphism0.0006831Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000000000001208Moderately 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) · DrugBank ATC (DB) · 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) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]