SUPERFAMILY 1.75 HMM library and genome assignments server


C-terminal effector domain of the bipartite response regulators superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   DNA/RNA-binding 3-helical bundle [ 46688] (14)
Superfamily:   C-terminal effector domain of the bipartite response regulators [ 46894] (3)
Families:   PhoB-like [ 46895] (5)
  GerE-like (LuxR/UhpA family of transcriptional regulators) [ 46900] (5)
  Spo0A [ 46903]


Superfamily statistics
Genomes (2,447) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 42,492 280,043 14
Proteins 42,425 279,890 14


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) regulation of metabolic process 5.345e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.367 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.9752 Least Informative Inherited
Biological Process (BP) regulation of biosynthetic process 4.784e-05 Moderately Informative Direct
Biological Process (BP) signal transduction 0.9943 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.05994 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.02623 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.02026 Moderately Informative Inherited
Biological Process (BP) intracellular signal transduction 9.587e-05 Informative Direct
Biological Process (BP) pathogenesis 2.756e-07 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.01304 Highly Informative Inherited
Molecular Function (MF) binding 0.4733 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.006212 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 1.404e-11 Informative Direct
Molecular Function (MF) DNA binding 0.0001669 Informative Direct
Molecular Function (MF) molecular transducer activity 7.034e-06 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 1.317e-11 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0008413 Highly Informative Direct
Cellular Component (CC) external encapsulating structure 0.0004606 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processCarbohydrate metabolism4.713e-16Moderately InformativeDirect
Biological processSporulation0InformativeDirect
Biological processVirulence4.632e-14InformativeDirect
Biological processAntibiotic resistance2.425e-09InformativeDirect
Biological processTwo-component regulatory system0Highly InformativeDirect
Biological processConjugation2.683e-11Highly InformativeDirect
Biological processAntibiotic biosynthesis1.158e-10Highly InformativeDirect
Cellular componentCytoplasm0.0002016Least InformativeDirect
DomainTPR repeat5.343e-05Highly InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionCalcium0.000717Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)hydrocarbon degradation5.354e-14Highly InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 13 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 C-terminal effector domain of the bipartite response regulators 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 13 hidden Markov models representing the C-terminal effector domain of the bipartite response regulators 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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]