SUPERFAMILY 1.75 HMM library and genome assignments server


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 (2,489) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 110,141 222,727 182
Proteins 106,389 210,038 182


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)nitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00Least InformativeDirect
Biological Process (BP)heterocycle metabolic process00Least InformativeDirect
Biological Process (BP)organic cyclic compound metabolic process00Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.84271Least InformativeInherited
Biological Process (BP)regulation of cellular process0.014451Least InformativeInherited
Biological Process (BP)single-organism cellular process0.022554.235e-06Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.0095850.004229Least InformativeInherited
Biological Process (BP)response to stimulus11Least InformativeInherited
Biological Process (BP)biosynthetic process10.4226Least InformativeInherited
Biological Process (BP)negative regulation of metabolic process6.746e-072.076e-15Moderately InformativeDirect
Biological Process (BP)RNA metabolic process3.629e-100Moderately InformativeDirect
Biological Process (BP)cellular response to stress0.00051036.384e-11Moderately InformativeDirect
Biological Process (BP)cellular catabolic process2.071e-064.187e-06Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process7.821e-050.0002271Moderately InformativeDirect
Biological Process (BP)macromolecular complex subunit organization0.5820.4269Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.75011Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.00030870.2008Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.1051Moderately InformativeInherited
Biological Process (BP)regulation of nitrogen compound metabolic process5.662e-081Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.0004170.01604Moderately InformativeInherited
Biological Process (BP)gene expression0.3570.002663Moderately InformativeInherited
Biological Process (BP)regulation of gene expression10.007836Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.2370.2739Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.53551Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process0.33115.563e-06Moderately InformativeInherited
Biological Process (BP)organelle organization10.7893Moderately InformativeInherited
Biological Process (BP)DNA metabolic process3.597e-120InformativeDirect
Biological Process (BP)response to DNA damage stimulus2.433e-080InformativeDirect
Biological Process (BP)ribonucleoprotein complex biogenesis2.877e-065.212e-11InformativeDirect
Biological Process (BP)nucleobase-containing compound catabolic process3.57e-056.602e-07InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process00InformativeDirect
Biological Process (BP)regulation of cellular catabolic process0.14320.009014InformativeInherited
Biological Process (BP)negative regulation of cellular metabolic process0.010460.0001665InformativeInherited
Biological Process (BP)negative regulation of nitrogen compound metabolic process0.0012980.4271InformativeInherited
Biological Process (BP)positive regulation of nitrogen compound metabolic process0.1650.8705InformativeInherited
Biological Process (BP)regulation of mitotic cell cycle0.057140.1468InformativeInherited
Biological Process (BP)regulation of cell cycle process0.092170.3663InformativeInherited
Biological Process (BP)cell cycle process0.74360.03474InformativeInherited
Biological Process (BP)mitochondrion organization0.029116.439e-08InformativeInherited
Biological Process (BP)nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay04.383e-06Highly InformativeDirect
Biological Process (BP)DNA replication4.497e-070Highly InformativeDirect
Biological Process (BP)response to ionizing radiation8.032e-050.0001878Highly InformativeDirect
Biological Process (BP)RNA 3'-end processing02.451e-10Highly InformativeDirect
Biological Process (BP)regulation of DNA metabolic process2.106e-105.236e-07Highly InformativeDirect
Biological Process (BP)ribonucleoprotein complex subunit organization3.921e-058.879e-09Highly InformativeDirect
Biological Process (BP)mitotic cell cycle checkpoint0.0030440.05921Highly InformativeInherited
Biological Process (BP)negative regulation of gene expression0.37771.837e-10Highly InformativeInherited
Biological Process (BP)DNA damage checkpoint0.19891Highly InformativeInherited
Biological Process (BP)DNA recombination1.981e-050.02849Highly InformativeInherited
Biological Process (BP)mRNA processing0.012130.007405Highly InformativeInherited
Molecular Function (MF)hydrolase activity1.24e-140Least InformativeDirect
Molecular Function (MF)transferase activity10.05423Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds00Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.61440Moderately InformativeInherited
Molecular Function (MF)nuclease activity00InformativeDirect
Molecular Function (MF)nucleotidyltransferase activity0.0025720InformativeInherited
Molecular Function (MF)DNA polymerase activity9.048e-070Highly InformativeDirect
Molecular Function (MF)endoribonuclease activity0.9070.9802Highly InformativeInherited
Cellular Component (CC)intracellular organelle part17.884e-05Least InformativeInherited
Cellular Component (CC)intracellular non-membrane-bounded organelle0.0030373.751e-12Least InformativeInherited
Cellular Component (CC)protein complex0.35281Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.074290.8924Least InformativeInherited
Cellular Component (CC)cytoplasmic part11Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.00026071.03e-05Moderately InformativeDirect
Cellular Component (CC)ribonucleoprotein complex0.0071960Moderately InformativeInherited
Cellular Component (CC)cytoplasmic mRNA processing body3.098e-130Highly InformativeDirect
Cellular Component (CC)CCR4-NOT complex00Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex0.00022150Highly 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) nitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 4.235e-06 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) response to stimulus 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.004229 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.4226 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) negative regulation of metabolic process 2.076e-15 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 6.384e-11 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 5.563e-06 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 4.187e-06 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0002271 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.7201 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) homeostatic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.2008 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.01604 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.6596 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.007836 Moderately Informative Inherited
Biological Process (BP) gene expression 0.002663 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.4269 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1127 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.7893 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.2739 Moderately Informative Inherited
Biological Process (BP) DNA metabolic process 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0 Informative Direct
Biological Process (BP) mitochondrion organization 6.439e-08 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0 Informative Direct
Biological Process (BP) ribonucleoprotein complex biogenesis 5.212e-11 Informative Direct
Biological Process (BP) negative regulation of cellular metabolic process 0.0001665 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 9.527e-05 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 6.602e-07 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.000153 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 3.217e-06 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.004446 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.009014 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.4271 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 0.8705 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.003046 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.002022 Informative Inherited
Biological Process (BP) cell proliferation 0.1484 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.1468 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.3663 Informative Inherited
Biological Process (BP) regulation of growth 1 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.3117 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.01202 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.1275 Informative Inherited
Biological Process (BP) chromosome organization 0.004422 Informative Inherited
Biological Process (BP) sexual reproduction 0.01326 Informative Inherited
Biological Process (BP) single organism reproductive process 0.019 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.06075 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.8211 Informative Inherited
Biological Process (BP) cell cycle process 0.03474 Informative Inherited
Biological Process (BP) ncRNA processing 1 Informative Inherited
Biological Process (BP) nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 4.383e-06 Highly Informative Direct
Biological Process (BP) DNA replication 0 Highly Informative Direct
Biological Process (BP) regulation of translation 0 Highly Informative Direct
Biological Process (BP) germ cell development 1.758e-06 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 0.0001878 Highly Informative Direct
Biological Process (BP) negative regulation of gene expression 1.837e-10 Highly Informative Direct
Biological Process (BP) RNA 3'-end processing 2.451e-10 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0 Highly Informative Direct
Biological Process (BP) DNA methylation or demethylation 1.948e-06 Highly Informative Direct
Biological Process (BP) stem cell development 2.819e-05 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 5.236e-07 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 2.34e-07 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex subunit organization 8.879e-09 Highly Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 3.893e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cellular macromolecule biosynthetic process 0.0003688 Highly Informative Direct
Biological Process (BP) cell cycle phase 0.008257 Highly Informative Inherited
Biological Process (BP) DNA repair 1 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle checkpoint 0.05921 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.3097 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.3156 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.3554 Highly Informative Inherited
Biological Process (BP) DNA damage checkpoint 1 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.02849 Highly Informative Inherited
Biological Process (BP) aging 0.001398 Highly Informative Inherited
Biological Process (BP) rRNA processing 0.1383 Highly Informative Inherited
Biological Process (BP) mRNA processing 0.007405 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle 0.03897 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.01295 Least Informative Inherited
Molecular Function (MF) transferase activity 0.05423 Least Informative Inherited
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) organic cyclic compound binding 0 Moderately Informative Direct
Molecular Function (MF) heterocyclic compound binding 0 Moderately 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 polymerase activity 0 Highly Informative Direct
Molecular Function (MF) endoribonuclease activity 0.9802 Highly Informative Inherited
Molecular Function (MF) RNA polymerase activity 1 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 3.751e-12 Least Informative Direct
Cellular Component (CC) intracellular organelle part 7.884e-05 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.8924 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 0 Moderately Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 1.03e-05 Moderately Informative Direct
Cellular Component (CC) chromosome 0.0002149 Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0 Highly Informative Direct
Cellular Component (CC) CCR4-NOT complex 0 Highly Informative Direct
Cellular Component (CC) replisome 0 Highly Informative Direct
Cellular Component (CC) RNA cap binding complex 8.889e-09 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 5.389e-06 Highly Informative Direct
Cellular Component (CC) small nuclear ribonucleoprotein complex 0.2063 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 H8.901e-10InformativeDirect
Enzyme Commission (EC)Retroviral ribonuclease H1.817e-09InformativeDirect
Enzyme Commission (EC)Ribonuclease H0Highly InformativeDirect
Enzyme Commission (EC)Exodeoxyribonuclease III5.258e-06Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the abdomen0.2598Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.1492Moderately InformativeInherited
Phenotypic Abnormality (PA)Elevated hepatic transaminases0.0004219Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal reproductive system morphology0.01093Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.04603Moderately InformativeInherited
Mammalian Phenotype (MP)tumorigenesis0.05054Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.0004854InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.0008411InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.001851InformativeInherited
Mammalian Phenotype (MP)malignant tumors0.009743InformativeInherited
Mammalian Phenotype (MP)small testis6.159e-05Highly InformativeDirect
Mammalian Phenotype (MP)sarcoma0.0002357Highly InformativeDirect
Mammalian Phenotype (MP)decreased male germ cell number0.0002562Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.1156Least InformativeInherited
Worm Phenotype (WP)RNA expression variant1.675e-13InformativeDirect
Worm Phenotype (WP)RNAi response variant1.803e-11Highly InformativeDirect
Worm Phenotype (WP)transgene silencing variant0.84Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)melanotic mass phenotype0.0008651Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0.9983Least InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)1Moderately InformativeInherited
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)RNA-directed DNA polymerase0Highly InformativeDirect
Enzyme Commission (EC)HIV-1 retropepsin0Highly InformativeDirect
Enzyme Commission (EC)Exoribonuclease H7.512e-10Highly InformativeDirect
Enzyme Commission (EC)Retroviral ribonuclease H1.922e-09Highly InformativeDirect
Enzyme Commission (EC)HIV-2 retropepsin2.462e-05Highly InformativeDirect
Enzyme Commission (EC)Exodeoxyribonucleases producing 5'-phosphomonoesters1Highly InformativeInherited

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)antiinfectives for systemic use0.0003967Moderately InformativeDirect
Drugbank ATC_code (DB)dermatologicals0.007827Moderately InformativeInherited
Drugbank ATC_code (DB)antibiotics and chemotherapeutics for dermatological use1.123e-05InformativeDirect
Drugbank ATC_code (DB)antiinfectives5.373e-05InformativeDirect
Drugbank ATC_code (DB)direct acting antivirals1InformativeInherited
Drugbank ATC_code (DB)nucleosides and nucleotides excl. reverse transcriptase inhibitors9.574e-07Highly InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDNA damage0Moderately InformativeDirect
Biological processHost-virus interaction3.008e-06Moderately InformativeDirect
Biological processDNA recombination0InformativeDirect
Biological processDNA replication0InformativeDirect
Biological processVirus entry into host cell0InformativeDirect
Biological processTranslation regulation6.056e-11InformativeDirect
Biological processMeiosis4.822e-05InformativeDirect
Biological processCapsid maturation0Highly InformativeDirect
Biological processRNA-mediated gene silencing0Highly InformativeDirect
Biological processModulation of host cell apoptosis by virus0Highly InformativeDirect
Biological processViral genome integration0Highly InformativeDirect
Biological processViral penetration into host nucleus2.329e-16Highly InformativeDirect
Biological processNonsense-mediated mRNA decay4.324e-07Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane1Least InformativeInherited
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentVirion0InformativeDirect
Cellular componentHost cytoplasm0InformativeDirect
Cellular componentHost membrane0InformativeDirect
Cellular componentHost nucleus0InformativeDirect
Cellular componentViral nucleoprotein0Highly InformativeDirect
Coding sequence diversityRibosomal frameshifting0Moderately InformativeDirect
Coding sequence diversityRNA suppression of termination1.873e-12InformativeDirect
DiseaseAIDS0Moderately InformativeDirect
DomainSH2 domain1.566e-06InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationNuclease0Moderately InformativeDirect
Post-translational modificationNucleotidyltransferase0Moderately InformativeDirect
Post-translational modificationProtease1Moderately InformativeInherited
Post-translational modificationCapsid protein0InformativeDirect
Post-translational modificationDNA-directed DNA polymerase0InformativeDirect
Post-translational modificationAspartyl protease0Highly InformativeDirect
Post-translational modificationRNA-directed DNA polymerase0Highly InformativeDirect
Post-translational modificationMyristate0InformativeDirect
Post-translational modificationAutocatalytic cleavage0.8708InformativeInherited
Post-translational modificationProtein splicing1.78e-10Highly 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

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Internal database links

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


Alignments of sequences to 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · Internal database links ]