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 (2,453) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 42,604 123,860 14
Proteins 42,537 123,769 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 6.735e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.4182 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8614 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) signal transduction 0.9472 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.04041 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.004383 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.03062 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.005747 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.01997 Moderately Informative Inherited
Biological Process (BP) intracellular signal transduction 9.462e-05 Informative Direct
Biological Process (BP) pathogenesis 3.448e-07 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.01112 Highly Informative Inherited
Molecular Function (MF) binding 0.4201 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.003575 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 6.532e-12 Informative Direct
Molecular Function (MF) molecular transducer activity 4.566e-06 Informative Direct
Molecular Function (MF) DNA binding 7.937e-05 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 6.122e-12 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 0.0002209 Highly 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 metabolism2.365e-16Moderately InformativeDirect
Biological processSporulation0InformativeDirect
Biological processVirulence2.985e-14InformativeDirect
Biological processAntibiotic resistance2.353e-09InformativeDirect
Biological processTwo-component regulatory system0Highly InformativeDirect
Biological processConjugation2.788e-11Highly InformativeDirect
Biological processAntibiotic biosynthesis1.221e-10Highly InformativeDirect
Cellular componentCytoplasm0.0001004Least InformativeDirect
DomainTPR repeat5.083e-05Highly InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Molecular functionCalcium0.0006445Moderately 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 degradation3.2e-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 ]