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Ribonuclease H-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Ribonuclease H-like motif [ 53066] (7)
Superfamily:   Ribonuclease H-like [ 53098] (14)
Families:   Ribonuclease H [ 53099] (4)
  Retroviral integrase, catalytic domain [ 53107]
  mu transposase, core domain [ 53112]
  Transposase inhibitor (Tn5 transposase) [ 53115]
  DnaQ-like 3'-5' exonuclease [ 53118] (15)
  RuvC resolvase [ 53134]
  Mitochondrial resolvase ydc2 catalytic domain [ 69533]
  Putative Holliday junction resolvase RuvX [ 102485] (3)
  CAF1-like ribonuclease [ 102492] (2)
  PIWI domain [ 110640] (3)
  TM1739-like [ 142505]
  Hermes transposase-like [ 142508]
  Tex RuvX-like domain-like [ 159635]
  Prp8 beta-finger domain-like [ 159638]


Superfamily statistics
Genomes (3,257) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 131,920 500,497 182
Proteins 128,086 475,209 182


Functional annotation
General category Metabolism
Detailed category Nucleotide metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular aromatic compound metabolic process00Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)macromolecule metabolic process00Least InformativeDirect
Biological Process (BP)primary metabolic process0.000000000015420Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)biological regulation0.10011Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)response to stimulus0.80431Least InformativeInherited
Biological Process (BP)single-organism metabolic process11Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis11Least InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.0000000000000091160Moderately InformativeDirect
Biological Process (BP)RNA metabolic process0.0000000000029270Moderately InformativeDirect
Biological Process (BP)cellular response to stress0.00000000055160.0000000000191Moderately InformativeDirect
Biological Process (BP)cellular catabolic process0.0000000093370.000000001864Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.00000061630.00000005182Moderately InformativeDirect
Biological Process (BP)cell communication0.60921Moderately InformativeInherited
Biological Process (BP)single organism signaling0.47931Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.99531Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.98671Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.81290.000005126Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.0031210.002117Moderately InformativeInherited
Biological Process (BP)gene expression10.6675Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process11Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process10.5921Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process10.848Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.56780.00238Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.000033280.1473Moderately InformativeInherited
Biological Process (BP)organelle organization0.91560.1687Moderately InformativeInherited
Biological Process (BP)DNA metabolic process0.00000000000057710InformativeDirect
Biological Process (BP)cellular response to DNA damage stimulus0.000000018940InformativeDirect
Biological Process (BP)negative regulation of gene expression0.00057970InformativeDirect
Biological Process (BP)nucleobase-containing compound catabolic process0.000000000000012040InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process00InformativeDirect
Biological Process (BP)regulation of cell cycle0.081010.7936InformativeInherited
Biological Process (BP)intracellular signal transduction0.01821InformativeInherited
Biological Process (BP)positive regulation of nucleobase-containing compound metabolic process0.11630.7222InformativeInherited
Biological Process (BP)regulation of catabolic process0.13660.4982InformativeInherited
Biological Process (BP)ncRNA processing0.45490.6234InformativeInherited
Biological Process (BP)mitotic cell cycle0.0011840.521InformativeInherited
Biological Process (BP)cell cycle process0.040350.2501InformativeInherited
Biological Process (BP)posttranscriptional regulation of gene expression0.061270InformativeInherited
Biological Process (BP)regulation of cellular amide metabolic process0.0072540InformativeInherited
Biological Process (BP)mitochondrion organization0.046550.000001763InformativeInherited
Biological Process (BP)DNA replication0.000000043330Highly InformativeDirect
Biological Process (BP)RNA catabolic process00Highly InformativeDirect
Biological Process (BP)gene silencing0.000000000046780Highly InformativeDirect
Biological Process (BP)positive regulation of cellular catabolic process0.0000012210.00001049Highly InformativeDirect
Biological Process (BP)regulation of DNA metabolic process0.000000024160.000073Highly InformativeDirect
Biological Process (BP)negative regulation of cell cycle phase transition0.0000050420.0003347Highly InformativeDirect
Biological Process (BP)regulation of mitotic cell cycle phase transition0.00030060.01965Highly InformativeInherited
Biological Process (BP)negative regulation of mitotic cell cycle0.000026790.007692Highly InformativeInherited
Biological Process (BP)cell cycle checkpoint0.000046640.01542Highly InformativeInherited
Biological Process (BP)DNA recombination0.0053020.692Highly InformativeInherited
Biological Process (BP)DNA catabolic process0.10970.00000008995Highly InformativeInherited
Biological Process (BP)nucleic acid phosphodiester bond hydrolysis0.05640.000000000007479Highly InformativeInherited
Molecular Function (MF)hydrolase activity00Least InformativeDirect
Molecular Function (MF)transferase activity10.7649Least InformativeInherited
Molecular Function (MF)binding10.001657Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.74150Moderately InformativeInherited
Molecular Function (MF)nucleic acid binding0.0016230Moderately InformativeInherited
Molecular Function (MF)nuclease activity00InformativeDirect
Molecular Function (MF)nucleotidyltransferase activity0.013260InformativeInherited
Molecular Function (MF)DNA binding0.85311InformativeInherited
Molecular Function (MF)single-stranded DNA binding0.00011810.00005849Highly InformativeDirect
Molecular Function (MF)DNA-directed DNA polymerase activity0.0000031220.000002031Highly InformativeDirect
Molecular Function (MF)endoribonuclease activity0.96530.5276Highly InformativeInherited
Molecular Function (MF)deoxyribonuclease activity0.44661Highly InformativeInherited
Molecular Function (MF)endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomo0.0027230.0001001Highly InformativeInherited
Cellular Component (CC)non-membrane-bounded organelle0.005260.0000000132Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)protein complex0.14351Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.025050.00004538Least InformativeInherited
Cellular Component (CC)intracellular organelle part10.01598Least InformativeInherited
Cellular Component (CC)transferase complex0.01790.0281Moderately InformativeInherited
Cellular Component (CC)nuclear part0.009730Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.059540.0000007923Moderately InformativeInherited
Cellular Component (CC)ribonucleoprotein granule0.000019810.00000000000003376InformativeDirect
Cellular Component (CC)transferase complex, transferring phosphorus-containing groups0.000220InformativeDirect
Cellular Component (CC)CCR4-NOT complex00Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex0.00000026140Highly InformativeDirect
Cellular Component (CC)pole plasm0.00000015920Highly 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 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0 Least Informative Direct
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.000005126 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0000000000191 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.000000001864 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.0006003 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.00000005182 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) single organism signaling 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.00238 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.976 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) immune system process 1 Moderately Informative Inherited
Biological Process (BP) defense response 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.002117 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.5921 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.1473 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.02473 Moderately Informative Inherited
Biological Process (BP) reproduction 0.01338 Moderately Informative Inherited
Biological Process (BP) response to biotic stimulus 0.6449 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.6397 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.848 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) gene expression 0.6675 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.1687 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) cellular response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 0.000001763 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) negative regulation of gene expression 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.0007078 Informative Direct
Biological Process (BP) negative regulation of cellular biosynthetic process 0.0000001764 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.000000003443 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) single organism reproductive process 0.00004168 Informative Direct
Biological Process (BP) chromosome organization 0.0003474 Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 0.00000000001805 Informative Direct
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.1652 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.7936 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.008173 Informative Inherited
Biological Process (BP) regulation of system process 0.9563 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.7222 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.4982 Informative Inherited
Biological Process (BP) immune effector process 0.01989 Informative Inherited
Biological Process (BP) defense response to other organism 0.02437 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.001588 Informative Inherited
Biological Process (BP) system process 1 Informative Inherited
Biological Process (BP) behavior 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.521 Informative Inherited
Biological Process (BP) interspecies interaction between organisms 0.001986 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.8144 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) ncRNA processing 0.6234 Informative Inherited
Biological Process (BP) ribosome biogenesis 1 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) cell development 1 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.006706 Informative Inherited
Biological Process (BP) cell activation 1 Informative Inherited
Biological Process (BP) embryo development 1 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.02089 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 1 Informative Inherited
Biological Process (BP) cell cycle process 0.2501 Informative Inherited
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) DNA catabolic process 0.00000008995 Highly Informative Direct
Biological Process (BP) RNA catabolic process 0 Highly Informative Direct
Biological Process (BP) germ cell development 0.0002844 Highly Informative Direct
Biological Process (BP) response to virus 0.000007126 Highly Informative Direct
Biological Process (BP) viral process 0.000003996 Highly Informative Direct
Biological Process (BP) gene silencing 0 Highly Informative Direct
Biological Process (BP) negative regulation of translation 0.0000000000001694 Highly Informative Direct
Biological Process (BP) positive regulation of cellular catabolic process 0.00001049 Highly Informative Direct
Biological Process (BP) regulation of chromosome organization 0.0008074 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0 Highly Informative Direct
Biological Process (BP) DNA methylation or demethylation 0.000000002904 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.000073 Highly Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.000000000007479 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle phase transition 0.0003347 Highly Informative Direct
Biological Process (BP) regulation of mitotic cell cycle phase transition 0.01965 Highly Informative Inherited
Biological Process (BP) single-organism behavior 0.8168 Highly Informative Inherited
Biological Process (BP) nervous system process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle 0.007692 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription from RNA polymerase II promoter 1 Highly Informative Inherited
Biological Process (BP) cell proliferation 0.07674 Highly Informative Inherited
Biological Process (BP) fertilization 0.05247 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.8181 Highly Informative Inherited
Biological Process (BP) cell maturation 0.3199 Highly Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.01542 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.692 Highly Informative Inherited
Biological Process (BP) macromolecule methylation 0.8605 Highly Informative Inherited
Biological Process (BP) double-strand break repair 0.9131 Highly Informative Inherited
Biological Process (BP) rRNA metabolic process 1 Highly Informative Inherited
Biological Process (BP) mRNA processing 1 Highly Informative Inherited
Biological Process (BP) RNA splicing 1 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.001657 Least Informative Inherited
Molecular Function (MF) transferase activity 0.7649 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0 Moderately Informative Direct
Molecular Function (MF) lyase activity 1 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 1 Moderately Informative Inherited
Molecular Function (MF) magnesium ion binding 0.00004856 Informative Direct
Molecular Function (MF) RNA binding 0 Informative Direct
Molecular Function (MF) nuclease activity 0 Informative Direct
Molecular Function (MF) nucleotidyltransferase activity 0 Informative Direct
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) chromatin binding 0.000001172 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0.00005849 Highly Informative Direct
Molecular Function (MF) DNA-directed DNA polymerase activity 0.000002031 Highly Informative Direct
Molecular Function (MF) endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomo 0.0001001 Highly Informative Direct
Molecular Function (MF) endoribonuclease activity 0.5276 Highly Informative Inherited
Molecular Function (MF) deoxyribonuclease activity 1 Highly Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.0000000132 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00004538 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01598 Least Informative Inherited
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.0000007923 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.0281 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.00005904 Informative Direct
Cellular Component (CC) protein-DNA complex 0.00000000001371 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.00000000000003376 Informative Direct
Cellular Component (CC) transferase complex, transferring phosphorus-containing groups 0 Informative Direct
Cellular Component (CC) CCR4-NOT complex 0 Highly Informative Direct
Cellular Component (CC) replisome 0 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0003246 Highly Informative Direct
Cellular Component (CC) pole plasm 0 Highly Informative Direct
Cellular Component (CC) small nuclear ribonucleoprotein complex 0.2139 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)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)1Least InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0Moderately InformativeDirect
Enzyme Commission (EC)Aspartic endopeptidases0InformativeDirect
Enzyme Commission (EC)RNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)Exoribonuclease H0.0000000008901InformativeDirect
Enzyme Commission (EC)Retroviral ribonuclease H0.000000001817InformativeDirect
Enzyme Commission (EC)Ribonuclease H0Highly InformativeDirect
Enzyme Commission (EC)Exodeoxyribonuclease III0.000005258Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processHost-virus interaction0Moderately InformativeDirect
Biological processDNA damage0Moderately InformativeDirect
Biological processVirus entry into host cell0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processEukaryotic host gene expression shutoff by virus0InformativeDirect
Biological processDNA recombination0InformativeDirect
Biological processRibosome biogenesis0InformativeDirect
Biological processTranslation regulation0.000000000000004737InformativeDirect
Biological processMeiosis0.00000005949InformativeDirect
Biological processmRNA processing0.0000001156InformativeDirect
Biological processDNA repair0.0001047InformativeDirect
Biological processViral immunoevasion1InformativeInherited
Biological processVirus exit from host cell0Highly InformativeDirect
Biological processViral genome integration0Highly InformativeDirect
Biological processViral penetration into host nucleus0Highly InformativeDirect
Biological processModulation of host cell apoptosis by virus0Highly InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processDNA integration0Highly InformativeDirect
Biological processNonsense-mediated mRNA decay0.000005792Highly InformativeDirect
Biological processIntron homing0.00001373Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane1Least InformativeInherited
Cellular componentVirion0Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentCapsid protein0InformativeDirect
Cellular componentHost cytoplasm0InformativeDirect
Cellular componentHost nucleus0InformativeDirect
Cellular componentHost membrane0InformativeDirect
Cellular componentHost endosome0Highly InformativeDirect
Coding sequence diversityRibosomal frameshifting0Moderately InformativeDirect
Coding sequence diversityRNA suppression of termination0.000000000001798InformativeDirect
DiseaseAIDS0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainSH2 domain0.000001809InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionLipid-binding0.00000000003605Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationProtease1Moderately InformativeInherited
Post-translational modificationAspartyl protease0Highly InformativeDirect
Post-translational modificationViral nucleoprotein0Highly InformativeDirect
Post-translational modificationDNA-directed DNA polymerase0Highly InformativeDirect
Post-translational modificationRNA-directed DNA polymerase0Highly InformativeDirect
Post-translational modificationMyristate0InformativeDirect
Post-translational modificationAutocatalytic cleavage0.9712InformativeInherited
Post-translational modificationProtein splicing0.0000000001865Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR012337 SSF53098 Protein matches
Abstract

The catalytic domain of several polynucleotidyl transferases share a similar structure, consisting of a 3-layer alpha/beta/alpha fold that contains mixed beta sheets, suggesting that they share a similar mechanism of catalysis. Polynucleotidyl transferases containing this domain include ribonuclease H class I (RNase HI) and class II (RNase HII), HIV RNase (reverse transcriptase domain), retroviral integrase (catalytic domain), Mu transposase (core domain), transposase inhibitor Tn5 (containing additional all-alpha subdomains), DnaQ-like 3-5 exonucleases (exonuclease domains), RuvC resolvase, and mitochondrial resolvase ydc2 (catalytic domain) [PubMed15299518, PubMed8696976, PubMed12823554].


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) · 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 58 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 Ribonuclease H-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 58 hidden Markov models representing the Ribonuclease H-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) · UniProtKB KeyWords (KW) · Internal database links ]