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 (1,779) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 10,701 33,295 15
Proteins 10,600 33,035 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 process2.953e-079.198e-05Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis1.445e-080.0002458Least InformativeDirect
Biological Process (BP)localization0.036280.02534Least InformativeInherited
Biological Process (BP)multi-organism process0.00070421.615e-05Moderately InformativeDirect
Biological Process (BP)cellular localization0.13750.006028Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.12610.1068Moderately InformativeInherited
Biological Process (BP)organic substance transport0.002618.715e-06Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.0045539.235e-05Moderately InformativeInherited
Biological Process (BP)protein transport1.54e-055.879e-09InformativeDirect
Biological Process (BP)cell projection organization01.39e-13InformativeDirect
Biological Process (BP)secretion by cell2.695e-051.145e-09InformativeDirect
Biological Process (BP)transmembrane transport0.052020.003218InformativeInherited
Biological Process (BP)pathogenesis4.837e-056.122e-10Highly InformativeDirect
Biological Process (BP)cell projection assembly1.645e-074.011e-07Highly InformativeDirect
Molecular Function (MF)structural molecule activity1.688e-091.942e-10Moderately InformativeDirect
Cellular Component (CC)cell projection2.006e-121.406e-10Moderately InformativeDirect
Cellular Component (CC)pilus00Highly 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 9.198e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0002458 Least Informative Direct
Biological Process (BP) localization 0.02534 Least Informative Inherited
Biological Process (BP) macromolecule localization 9.235e-05 Moderately Informative Direct
Biological Process (BP) multi-organism process 1.615e-05 Moderately Informative Direct
Biological Process (BP) organic substance transport 8.715e-06 Moderately Informative Direct
Biological Process (BP) cellular localization 0.006028 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.1068 Moderately Informative Inherited
Biological Process (BP) protein transport 5.879e-09 Informative Direct
Biological Process (BP) cell projection organization 1.39e-13 Informative Direct
Biological Process (BP) secretion by cell 1.145e-09 Informative Direct
Biological Process (BP) transmembrane transport 0.003218 Informative Inherited
Biological Process (BP) pathogenesis 6.122e-10 Highly Informative Direct
Biological Process (BP) cell projection assembly 4.011e-07 Highly Informative Direct
Molecular Function (MF) structural molecule activity 1.942e-10 Moderately Informative Direct
Cellular Component (CC) cell projection 1.406e-10 Moderately Informative Direct
Cellular Component (CC) pilus 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
Biological processProtein transport0Moderately InformativeDirect
Biological processCell adhesion3.185e-12InformativeDirect
Cellular componentMembrane0.2154Least InformativeInherited
Cellular componentCell outer membrane5.436e-09InformativeDirect
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 ]