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 (56) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 567 1,267 61
Proteins 567 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 process00.00000000000004889Least InformativeDirect
Biological Process (BP)nitrogen compound metabolic process00.000000000007733Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00.0000000008074Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00.00000000000002766Least InformativeDirect
Biological Process (BP)response to stimulus0.000000020360.0009186Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00.00000000000043Least InformativeDirect
Biological Process (BP)single-organism metabolic process0.49130.1914Least InformativeInherited
Biological Process (BP)regulation of cellular process0.12440.1473Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.000010890.1474Least InformativeInherited
Biological Process (BP)biosynthetic process0.048240.03368Least InformativeInherited
Biological Process (BP)single-organism cellular process0.2060.3356Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.00013220.005534Least InformativeInherited
Biological Process (BP)developmental process0.0000036620.008752Least InformativeInherited
Biological Process (BP)multicellular organismal process0.000012040.01646Least InformativeInherited
Biological Process (BP)organelle organization0.0000001330.000531Moderately InformativeDirect
Biological Process (BP)lipid biosynthetic process0.0000000000000064770.00000000000001253Moderately InformativeDirect
Biological Process (BP)response to abiotic stimulus0.000013860.0000229Moderately InformativeDirect
Biological Process (BP)anatomical structure morphogenesis0.000000077740.0000001355Moderately InformativeDirect
Biological Process (BP)RNA metabolic process00Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.00050060.0006157Moderately InformativeDirect
Biological Process (BP)aromatic compound biosynthetic process0.00011040.0005403Moderately InformativeDirect
Biological Process (BP)regulation of localization0.0000000000022560Moderately InformativeDirect
Biological Process (BP)cellular macromolecule biosynthetic process0.000025130.0005144Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.00000000000071850.0000002675Moderately InformativeDirect
Biological Process (BP)cellular component biogenesis0.000000000073320.000028Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function0.0000000000000064770.0000000000859Moderately InformativeDirect
Biological Process (BP)cellular lipid metabolic process0.0000003340.00000001392Moderately InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process0.00028550.0004457Moderately InformativeDirect
Biological Process (BP)single-organism developmental process0.00000021680.0005198Moderately InformativeDirect
Biological Process (BP)positive regulation of cellular process0.000000013090.00000007689Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.0000000000021950.000000003331Moderately InformativeDirect
Biological Process (BP)multi-organism process0.0065310.04995Moderately InformativeInherited
Biological Process (BP)organic cyclic compound biosynthetic process0.0011650.002063Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.95881Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.0000000069740.00103Moderately InformativeInherited
Biological Process (BP)gene expression0.00042030.002147Moderately InformativeInherited
Biological Process (BP)transcription, DNA-dependent0.0000000000000095890.00000000005912InformativeDirect
Biological Process (BP)protein complex assembly00.00000000000002604InformativeDirect
Biological Process (BP)cytoskeleton organization00.00000000001543InformativeDirect
Biological Process (BP)actin filament-based process00.0000000000001885InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly00InformativeDirect
Biological Process (BP)regulation of cell proliferation0.00000000000000330.0000000001247InformativeDirect
Biological Process (BP)glycerolipid metabolic process00InformativeDirect
Biological Process (BP)anatomical structure formation involved in morphogenesis00.00000000007613InformativeDirect
Biological Process (BP)regulation of secretion00InformativeDirect
Biological Process (BP)positive regulation of transport00.000000000008906InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity00InformativeDirect
Biological Process (BP)regulation of establishment of protein localization00InformativeDirect
Biological Process (BP)cardiovascular system development0.00000000000000330.00000000001942InformativeDirect
Biological Process (BP)nucleic acid phosphodiester bond hydrolysis00InformativeDirect
Biological Process (BP)defense response0.94750.9018InformativeInherited
Biological Process (BP)response to other organism0.032490.04037InformativeInherited
Biological Process (BP)response to nutrient levels0.000076730.001129InformativeInherited
Biological Process (BP)angiogenesis00Highly InformativeDirect
Biological Process (BP)response to hypoxia0.000000000000048030.0000000000000375Highly 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 starvation0.0000038040.00003834Highly InformativeDirect
Biological Process (BP)regulation of phospholipase activity00Highly InformativeDirect
Biological Process (BP)defense response to bacterium0.000087770.00007837Highly 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)binding0.014080.7288Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)anion binding0.00000000000027540.00000000001881Moderately InformativeDirect
Molecular Function (MF)cation binding0.0000000000014360.000000000001729Moderately InformativeDirect
Molecular Function (MF)nuclease activity00InformativeDirect
Molecular Function (MF)receptor binding00.00000000000002469InformativeDirect
Molecular Function (MF)cytoskeletal protein binding00.000000000000001558InformativeDirect
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 organelle0.000000042020.0002495Least InformativeDirect
Cellular Component (CC)protein complex0.00000092680.0005945Least InformativeDirect
Cellular Component (CC)intracellular organelle part0.00011790.0339Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle11Least InformativeInherited
Cellular Component (CC)extracellular region part00Moderately InformativeDirect
Cellular Component (CC)nuclear part0.000000000062840.00001021Moderately InformativeDirect
Cellular Component (CC)intracellular organelle lumen0.000000000036740.000004231Moderately InformativeDirect
Cellular Component (CC)vesicle0.008310.001603Moderately InformativeInherited
Cellular Component (CC)extracellular matrix00InformativeDirect
Cellular Component (CC)proteinaceous extracellular matrix00.000000002235Highly 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 0.00000000000004889 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.000000000007733 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0000000008074 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.00000000000002766 Least Informative Direct
Biological Process (BP) response to stimulus 0.0009186 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00000000000043 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.1473 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.1914 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.3356 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1474 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.03368 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.005534 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.01646 Least Informative Inherited
Biological Process (BP) developmental process 0.008752 Least Informative Inherited
Biological Process (BP) organelle organization 0.000531 Moderately Informative Direct
Biological Process (BP) lipid biosynthetic process 0.00000000000001253 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0000229 Moderately Informative Direct
Biological Process (BP) anatomical structure morphogenesis 0.0000001355 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0006157 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0005403 Moderately Informative Direct
Biological Process (BP) regulation of localization 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0005144 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.0000002675 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.000028 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0000000000859 Moderately Informative Direct
Biological Process (BP) cellular lipid metabolic process 0.00000001392 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.0004457 Moderately Informative Direct
Biological Process (BP) single-organism developmental process 0.0005198 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.00000007689 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.000000003331 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.04995 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.002063 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 0.00103 Moderately Informative Inherited
Biological Process (BP) reproduction 0.2518 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002147 Moderately Informative Inherited
Biological Process (BP) transcription, DNA-dependent 0.00000000005912 Informative Direct
Biological Process (BP) protein complex assembly 0.00000000000002604 Informative Direct
Biological Process (BP) cytoskeleton organization 0.00000000001543 Informative Direct
Biological Process (BP) biological adhesion 0.0000992 Informative Direct
Biological Process (BP) actin filament-based process 0.0000000000001885 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 0 Informative Direct
Biological Process (BP) regulation of locomotion 0.00007677 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000000001247 Informative Direct
Biological Process (BP) glycerolipid metabolic process 0 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.00000000007613 Informative Direct
Biological Process (BP) regulation of secretion 0 Informative Direct
Biological Process (BP) positive regulation of transport 0.000000000008906 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.00005262 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 0.00000000001942 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0 Informative Direct
Biological Process (BP) defense response 0.9018 Informative Inherited
Biological Process (BP) response to other organism 0.04037 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001129 Informative Inherited
Biological Process (BP) reproductive system development 0.1469 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.3366 Informative Inherited
Biological Process (BP) angiogenesis 0 Highly Informative Direct
Biological Process (BP) response to hypoxia 0.0000000000000375 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 0.0002763 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 0 Highly Informative Direct
Biological Process (BP) gonad development 0.000292 Highly Informative Direct
Biological Process (BP) cellular response to starvation 0.00003834 Highly Informative Direct
Biological Process (BP) regulation of phospholipase activity 0 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.000001605 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.00007837 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 0.0000007489 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.7288 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) anion binding 0.00000000001881 Moderately Informative Direct
Molecular Function (MF) cation binding 0.000000000001729 Moderately Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) receptor binding 0.00000000000002469 Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.000000000000001558 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 0.0002495 Least Informative Direct
Cellular Component (CC) protein complex 0.0005945 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.0339 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 0.00001021 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.000004231 Moderately Informative Direct
Cellular Component (CC) vesicle 0.001603 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.0004617 Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.000000002235 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 response0.00000000003265InformativeDirect
Biological processCell adhesion0.00001419InformativeDirect
Biological processFertilization0.00000000000005128Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentLysosome0InformativeDirect
Cellular componentExtracellular matrix0.00004574InformativeDirect
Cellular componentBasement membrane0Highly InformativeDirect
Coding sequence diversityPolymorphism0.0007301Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.000000000001282Moderately 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 ]