SUPERFAMILY 1.75 HMM library and genome assignments server


Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains [ 82693]
Families:   Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains [ 82694]


Superfamily statistics
Genomes (1,728) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 30,634 187,720 6
Proteins 10,613 64,794 2


Functional annotation
General category Processes_IC
Detailed category Transport

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) localization 0 Least Informative Direct
Biological Process (BP) response to stimulus 0.0001162 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.001124 Least Informative Inherited
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) response to drug 5.737e-14 Highly Informative Direct
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 1.251e-06 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 processAntibiotic resistance2.197e-08InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCell inner membrane0InformativeDirect
DomainTransmembrane0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · 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 Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains 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 Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains 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) · Internal database links ]