SUPERFAMILY 1.75 HMM library and genome assignments server


Pili subunits superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Pili subunits [ 54522]
Superfamily:   Pili subunits [ 54523] (7)
Families:   Pilin [ 54524] (4)
  TcpA-like pilin [ 89868]
  Pseudopilin [ 117865]
  YadA C-terminal domain-like [ 143107]
  EpsJ-like [ 160127] (2)
  GspK pilin-like domain [ 160132]
  GSPII I/J protein-like [ 160135] (2)


Superfamily statistics
Genomes (1,771) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 10,633 70,779 15
Proteins 10,530 70,026 15


Functional annotation
General category Processes_EC
Detailed category Cell adhesion

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)single-organism cellular process3.528e-077.437e-05Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis1.623e-080.00027Least InformativeDirect
Biological Process (BP)localization0.034270.02471Least InformativeInherited
Biological Process (BP)multi-organism process0.00077491.739e-05Moderately InformativeDirect
Biological Process (BP)cellular localization0.1440.006309Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.11530.1042Moderately InformativeInherited
Biological Process (BP)organic substance transport0.0023917.428e-06Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.0049869.683e-05Moderately InformativeInherited
Biological Process (BP)protein transport1.491e-054.795e-09InformativeDirect
Biological Process (BP)cell projection organization01.919e-13InformativeDirect
Biological Process (BP)secretion by cell2.525e-051.029e-09InformativeDirect
Biological Process (BP)transmembrane transport0.053530.003611InformativeInherited
Biological Process (BP)pathogenesis4.223e-054.478e-10Highly InformativeDirect
Biological Process (BP)cell projection assembly1.481e-074.309e-07Highly InformativeDirect
Molecular Function (MF)structural molecule activity2.186e-092.907e-10Moderately InformativeDirect
Cellular Component (CC)cell projection2.2e-121.43e-10Moderately 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) single-organism cellular process 7.437e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00027 Least Informative Direct
Biological Process (BP) localization 0.02471 Least Informative Inherited
Biological Process (BP) macromolecule localization 9.683e-05 Moderately Informative Direct
Biological Process (BP) multi-organism process 1.739e-05 Moderately Informative Direct
Biological Process (BP) organic substance transport 7.428e-06 Moderately Informative Direct
Biological Process (BP) cellular localization 0.006309 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.1042 Moderately Informative Inherited
Biological Process (BP) protein transport 4.795e-09 Informative Direct
Biological Process (BP) cell projection organization 1.919e-13 Informative Direct
Biological Process (BP) secretion by cell 1.029e-09 Informative Direct
Biological Process (BP) transmembrane transport 0.003611 Informative Inherited
Biological Process (BP) pathogenesis 4.478e-10 Highly Informative Direct
Biological Process (BP) cell projection assembly 4.309e-07 Highly Informative Direct
Molecular Function (MF) structural molecule activity 2.907e-10 Moderately Informative Direct
Cellular Component (CC) cell projection 1.43e-10 Moderately Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processCell adhesion1.342e-13InformativeDirect
Biological processVirulence5.201e-06InformativeDirect
Cellular componentMembrane0.1545Least InformativeInherited
Cellular componentCell outer membrane2.7e-10InformativeDirect
DomainTransmembrane0.004549Least InformativeInherited
DomainTransmembrane beta strand5.7e-07InformativeDirect
Post-translational modificationMethylation0Moderately 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 12 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 Pili subunits 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 12 hidden Markov models representing the Pili subunits 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 ]