SUPERFAMILY 1.75 HMM library and genome assignments server


PhoU-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Spectrin repeat-like [ 46965] (16)
Superfamily:   PhoU-like [ 109755]
Families:   PhoU-like [ 109756] (3)


Superfamily statistics
Genomes (2,395) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 4,612 12,196 4
Proteins 4,572 12,097 4


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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)regulation of metabolic process03.746e-15Least InformativeDirect
Biological Process (BP)regulation of cellular process01.138e-09Least InformativeDirect
Biological Process (BP)regulation of localization00Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process00Moderately InformativeDirect
Biological Process (BP)negative regulation of metabolic process00Moderately InformativeDirect
Biological Process (BP)regulation of phosphate metabolic process10Moderately InformativeInherited
Biological Process (BP)regulation of ion transport00InformativeDirect
Biological Process (BP)regulation of transmembrane transport00Highly InformativeDirect
Molecular Function (MF)binding1.035e-070.000351Least InformativeDirect
Molecular Function (MF)protein dimerization activity00InformativeDirect
Molecular Function (MF)protein homodimerization activity00Highly 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) regulation of metabolic process 3.746e-15 Least Informative Direct
Biological Process (BP) regulation of cellular process 1.138e-09 Least Informative Direct
Biological Process (BP) regulation of localization 0 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of ion transport 0 Informative Direct
Biological Process (BP) regulation of transmembrane transport 0 Highly Informative Direct
Molecular Function (MF) binding 0.000351 Least Informative Direct
Molecular Function (MF) protein dimerization activity 0 Informative Direct
Molecular Function (MF) protein homodimerization activity 0 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Cellular componentCytoplasm1.735e-06Least InformativeDirect

Document: KW annotation of SCOP domains

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

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 4 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 PhoU-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 4 hidden Markov models representing the PhoU-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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]