SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.

Small-conductance potassium channel superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   Small-conductance potassium channel [ 81328]
Superfamily:   Small-conductance potassium channel [ 81327]
Families:   Small-conductance potassium channel [ 81326]

Superfamily statistics
Genomes (128) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 434 461 2
Proteins 432 459 2

Functional annotation
General category Processes_IC
Detailed category Ion metabolism and transport

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 0.0000000005752 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.06069 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.03468 Least Informative Inherited
Biological Process (BP) system process 0.000001381 Moderately Informative Direct
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) metal ion transport 0.0000000000001083 Informative Direct
Biological Process (BP) transmembrane transport 0.00001609 Informative Direct
Biological Process (BP) monovalent inorganic cation transport 0 Highly Informative Direct
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) ion gated channel activity 0.0003276 Highly Informative Direct
Molecular Function (MF) cation channel activity 0.001304 Highly Informative Inherited
Cellular Component (CC) membrane 0.00000000001503 Least Informative Direct
Cellular Component (CC) plasma membrane 0.00000001218 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.02886 Moderately Informative Inherited
Cellular Component (CC) integral to membrane 0.0000000365 Informative Direct

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Cellular componentMembrane0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationPhosphoprotein0.0001086Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR004178 SSF81327 Protein matches
Abstract Small-conductance Ca2+-activated K+ channels (SK channels) are independent of voltage and gated solely by intracellular Ca2+. These membrane channels are heteromeric complexes that comprise pore-forming alpha-subunits and the Ca2+-binding protein calmodulin (CaM) [PubMed11323678]. CaM binds to the SK channel through this the CaM-binding domain (CaMBD), which is located in an intracellular region of the alpha-subunit immediately carboxy-terminal to the pore. Channel opening is triggered when Ca2+ binds the EF hands in the N-lobe of CaM. The structure of this domain complexed with CaM is known [PubMed11323678]. This domain forms an elongated dimer with a CaM molecule bound at each end; each CaM wraps around three alpha-helices, two from one CaMBD subunit and one from the other.

InterPro database

PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Worm Phenotype (WP) · 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 2 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 Small-conductance potassium channel 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 2 hidden Markov models representing the Small-conductance potassium channel 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Worm Phenotype (WP) · UniProtKB KeyWords (KW) · Internal database links ]