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DNA/RNA polymerases superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   DNA/RNA polymerases [ 56671]
Superfamily:   DNA/RNA polymerases [ 56672] (6)
Families:   DNA polymerase I [ 56673] (4)
  Lesion bypass DNA polymerase (Y-family), catalytic domain [ 100888] (4)
  Reverse transcriptase [ 56686] (2)
  T7 RNA polymerase [ 56691]
  RNA-dependent RNA-polymerase [ 56694] (2)
  dsRNA phage RNA-dependent RNA-polymerase [ 64480]


Superfamily statistics
Genomes (3,191) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 58,500 658,000 164
Proteins 57,724 655,670 164


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Nucleotidyltransferases0Least InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0Least InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups1Least InformativeInherited
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0Moderately InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0Moderately InformativeDirect
Enzyme Commission (EC)Cysteine endopeptidases0Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0Moderately InformativeDirect
Enzyme Commission (EC)Serine endopeptidases1Moderately InformativeInherited
Enzyme Commission (EC)Omega peptidases0.587Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)mRNA (nucleoside-2'-O-)-methyltransferase0InformativeDirect
Enzyme Commission (EC)mRNA (guanine-N(7)-)-methyltransferase0InformativeDirect
Enzyme Commission (EC)Retroviral ribonuclease H0InformativeDirect
Enzyme Commission (EC)Flavivirin0InformativeDirect
Enzyme Commission (EC)RNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)Nucleoside-triphosphatase0InformativeDirect
Enzyme Commission (EC)Exoribonuclease H0InformativeDirect
Enzyme Commission (EC)Aspartic endopeptidases0InformativeDirect
Enzyme Commission (EC)RNA-directed RNA polymerase0InformativeDirect
Enzyme Commission (EC)Hepacivirin0Highly InformativeDirect
Enzyme Commission (EC)Picornain 3C0Highly InformativeDirect
Enzyme Commission (EC)Polynucleotide 5'-phosphatase0Highly InformativeDirect
Enzyme Commission (EC)Ribonuclease H0.00000000000002098Highly InformativeDirect
Enzyme Commission (EC)Picornain 2A0.0000000002396Highly InformativeDirect
Enzyme Commission (EC)Nuclear-inclusion-a endopeptidase0.000000001069Highly InformativeDirect
Enzyme Commission (EC)Pestivirus NS3 polyprotein peptidase0.0000001803Highly InformativeDirect
Enzyme Commission (EC)Calicivirin0.000002573Highly InformativeDirect
Enzyme Commission (EC)Helper-component proteinase0.000003673Highly 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 head0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the integument0.0414Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.1743Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.002653Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.0111Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm0.02886Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.2824Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by histology0.0005871InformativeDirect
Phenotypic Abnormality (PA)Abnormal breast morphology0.0009014InformativeDirect
Phenotypic Abnormality (PA)Localized skin lesion0.2008InformativeInherited
Phenotypic Abnormality (PA)Generalized abnormality of skin0.2539InformativeInherited
Phenotypic Abnormality (PA)Dermal atrophy0.000106Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)hematopoietic system phenotype0.01043Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.01161Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.06264Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.0001516Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.1676Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.1983Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.2345Moderately InformativeInherited
Mammalian Phenotype (MP)increased carcinoma incidence0.00005685InformativeDirect
Mammalian Phenotype (MP)chromosomal instability0.0003335InformativeDirect
Mammalian Phenotype (MP)abnormal B cell differentiation0.001212InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)blast cell physiology variant0.001196Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.0012Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.2069Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.2814Least InformativeInherited
Worm Phenotype (WP)metabolic pathway variant0.01789Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.09084Moderately InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0973Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.4752Moderately InformativeInherited
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.002276InformativeInherited
Worm Phenotype (WP)nuclear appearance variant0.01277InformativeInherited
Worm Phenotype (WP)nuclear morphology variation early emb0.0002391Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)chromosome/plasmid maintenance0.04325InformativeInherited
Yeast Phenotype (YP)mutation frequency0.00005115Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)0 seed germination stage0.00000004209InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups1Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases1Moderately InformativeInherited
Enzyme Commission (EC)RNA-directed RNA polymerase0InformativeDirect
Enzyme Commission (EC)DNA-directed DNA polymerase0InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Endoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)Cysteine endopeptidases0InformativeDirect
Enzyme Commission (EC)In phosphorus-containing anhydrides0InformativeDirect
Enzyme Commission (EC)RNA helicase0InformativeDirect
Enzyme Commission (EC)Omega peptidases0.9366InformativeInherited
Enzyme Commission (EC)Serine endopeptidases1InformativeInherited
Enzyme Commission (EC)mRNA (guanine-N(7)-)-methyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Methyltransferase cap10Highly InformativeDirect
Enzyme Commission (EC)RNA-directed DNA polymerase0Highly InformativeDirect
Enzyme Commission (EC)Exoribonuclease H0Highly InformativeDirect
Enzyme Commission (EC)Retroviral ribonuclease H0Highly InformativeDirect
Enzyme Commission (EC)Polynucleotide 5'-phosphatase0Highly InformativeDirect
Enzyme Commission (EC)Flavivirin0Highly InformativeDirect
Enzyme Commission (EC)Picornain 3C0Highly InformativeDirect
Enzyme Commission (EC)HIV-1 retropepsin0Highly InformativeDirect
Enzyme Commission (EC)Nucleoside-triphosphate phosphatase0Highly InformativeDirect
Enzyme Commission (EC)HIV-2 retropepsin0.00002419Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 49 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 DNA/RNA polymerases 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 49 hidden Markov models representing the DNA/RNA polymerases 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 · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]