SUPERFAMILY 1.75 HMM library and genome assignments server

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beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   beta and beta-prime subunits of DNA dependent RNA-polymerase [ 64483]
Superfamily:   beta and beta-prime subunits of DNA dependent RNA-polymerase [ 64484] (2)
Families:   RNA-polymerase beta [ 64485] (2)
  RNA-polymerase beta-prime [ 64490] (2)


Superfamily statistics
Genomes (3,249) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 11,228 158,109 12
Proteins 10,955 156,153 12


Functional annotation
General category Information
Detailed category Transcription

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)DNA-directed RNA polymerase0InformativeDirect

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 eye0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0Least InformativeDirect
Phenotypic Abnormality (PA)Growth abnormality0Moderately InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal eye morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal eye physiology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0Moderately InformativeDirect
Phenotypic Abnormality (PA)Short stature0InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0002879Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0006682Least InformativeDirect
Worm Phenotype (WP)blast cell physiology variant0.0007419Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0007434Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.00321Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.008806Least InformativeInherited
Worm Phenotype (WP)apoptosis variant0.000000428Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.000005316Moderately InformativeDirect
Worm Phenotype (WP)germ cell development variant0.000006871Moderately InformativeDirect
Worm Phenotype (WP)level of transgene expression variant0.00002935Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.000308Moderately InformativeDirect
Worm Phenotype (WP)cell stress response variant0.00000001315InformativeDirect
Worm Phenotype (WP)early larval arrest0.0000006761InformativeDirect
Worm Phenotype (WP)egg laying variant0.000000835InformativeDirect
Worm Phenotype (WP)sick0.0004731InformativeDirect
Worm Phenotype (WP)fewer eggs laid0.000000000000008754Highly InformativeDirect
Worm Phenotype (WP)cell gamma ray response variant0.0000000000001246Highly InformativeDirect
Worm Phenotype (WP)hatching variant0.000000000002748Highly InformativeDirect
Worm Phenotype (WP)apoptosis reduced0.0000000004918Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

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)Nucleotidyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)DNA-directed RNA polymerase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · 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 9 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 beta and beta-prime subunits of DNA dependent RNA-polymerase 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 9 hidden Markov models representing the beta and beta-prime subunits of DNA dependent RNA-polymerase 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]