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Casein kinase II beta subunit superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Rubredoxin-like [ 57769] (17)
Superfamily:   Casein kinase II beta subunit [ 57798]
Families:   Casein kinase II beta subunit [ 57799]

 Superfamily statistics
Genomes (434) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,255 981 4
Proteins 1,242 973 4

 Functional annotation
General category Metabolism
Detailed category Other enzymes

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)protein metabolic process0.0008810.0003233Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.22890.1986Least InformativeInherited
Biological Process (BP)regulation of cellular process0.0026290.4405Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.0039010.0005052Least InformativeInherited
Biological Process (BP)cellular protein modification process2.221e-051.331e-06Moderately InformativeDirect
Biological Process (BP)phosphate-containing compound metabolic process0.00012649.1e-07Moderately InformativeDirect
Biological Process (BP)regulation of protein metabolic process0.00013437.802e-07Moderately InformativeDirect
Biological Process (BP)regulation of molecular function0.004651.83e-05Moderately InformativeInherited
Biological Process (BP)regulation of cellular metabolic process0.12110.06272Moderately InformativeInherited
Biological Process (BP)regulation of protein phosphorylation3.538e-062.711e-09InformativeDirect
Biological Process (BP)protein phosphorylation1.596e-086.975e-11InformativeDirect
Biological Process (BP)regulation of kinase activity7.011e-072.74e-10InformativeDirect
Molecular Function (MF)enzyme regulator activity4.627e-053.325e-09Moderately InformativeDirect
Molecular Function (MF)protein kinase regulator activity3.707e-100Highly InformativeDirect
Cellular Component (CC)protein complex2.764e-055.138e-06Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.00080410.07024Least InformativeInherited
Cellular Component (CC)protein kinase CK2 complex6.805e-090Highly 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) protein metabolic process 0.0003233 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.0005052 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.1986 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.4405 Least Informative Inherited
Biological Process (BP) cellular protein modification process 1.331e-06 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 9.1e-07 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 7.802e-07 Moderately Informative Direct
Biological Process (BP) regulation of molecular function 1.83e-05 Moderately Informative Direct
Biological Process (BP) regulation of cellular metabolic process 0.06272 Moderately Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 2.711e-09 Informative Direct
Biological Process (BP) protein phosphorylation 6.975e-11 Informative Direct
Biological Process (BP) regulation of kinase activity 2.74e-10 Informative Direct
Molecular Function (MF) enzyme regulator activity 3.325e-09 Moderately Informative Direct
Molecular Function (MF) protein kinase regulator activity 0 Highly Informative Direct
Cellular Component (CC) protein complex 5.138e-06 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.07024 Least Informative Inherited
Cellular Component (CC) protein kinase CK2 complex 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)vascular leaf0Least InformativeDirect
Plant ANatomical entity (PAN)stalk0Least InformativeDirect
Plant ANatomical entity (PAN)petal0Least InformativeDirect
Plant ANatomical entity (PAN)root0Least InformativeDirect
Plant ANatomical entity (PAN)microgametophyte0Least InformativeDirect
Plant ANatomical entity (PAN)sepal0Least InformativeDirect
Plant ANatomical entity (PAN)pedicel0Least InformativeDirect
Plant ANatomical entity (PAN)collective leaf structure0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)plant cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)plant embryo0Least InformativeDirect
Plant ANatomical entity (PAN)phyllome apex0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)gynoecium0Least InformativeDirect
Plant ANatomical entity (PAN)stem0Least InformativeDirect
Plant ANatomical entity (PAN)leaf lamina0Least InformativeDirect
Plant ANatomical entity (PAN)shoot internode0Least InformativeDirect
Plant ANatomical entity (PAN)shoot apex0Least InformativeDirect
Plant ANatomical entity (PAN)androecium0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.06 six leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.12 twelve leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.10 ten leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.08 eight leaves visible stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processWnt signaling pathway0InformativeDirect
Coding sequence diversityAlternative splicing4.628e-05Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000704 SSF57798 Protein matches
Abstract

Casein kinase, a ubiquitous, well-conserved protein kinase involved in cell metabolism and differentiation, is characterised by its preference for Ser or Thr in acidic stretches of amino acids. The enzyme is a tetramer of 2 alpha- and 2 beta-subunits [PubMed2666134, PubMed1856204]. However, some species (e.g., mammals) possess 2 related forms of the alpha-subunit (alpha and alpha'), while others (e.g., fungi) possess 2 related beta-subunits (beta and beta') [PubMed7737972]. The alpha-subunit is the catalytic unit and contains regions characteristic of serine/threonine protein kinases. The beta-subunit is believed to be regulatory, possessing an N-terminal auto-phosphorylation site, an internal acidic domain, and a potential metal-binding motif [PubMed7737972]. The beta subunit is a highly conserved protein of about 25 kD that contains, in its central section, a cysteine-rich motif that could be involved in binding a metal such as zinc [PubMed8027080]. The mammalian beta-subunit gene promoter shares common features with those of other mammalian protein kinases and is closely related to the promoter of the regulatory subunit of cAMP-dependent protein kinase [PubMed7737972].


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-quality) · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · 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 1 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 Casein kinase II beta subunit 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 1 hidden Markov models representing the Casein kinase II beta subunit 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-quality) · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.