SUPERFAMILY 1.75 HMM library and genome assignments server


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 (475) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,321 1,447 4
Proteins 1,309 1,430 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)regulation of metabolic process0.26110.2202Least InformativeInherited
Biological Process (BP)regulation of cellular process0.014240.4355Least InformativeInherited
Biological Process (BP)protein metabolic process0.0028330.0006014Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.012080.004146Least InformativeInherited
Biological Process (BP)cellular protein modification process6.667e-059.754e-06Moderately InformativeDirect
Biological Process (BP)phosphate-containing compound metabolic process0.00079182.214e-05Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00092139.215e-06Moderately InformativeDirect
Biological Process (BP)regulation of protein metabolic process0.00034736.772e-06Moderately InformativeDirect
Biological Process (BP)regulation of phosphate metabolic process13.581e-06Moderately InformativeInherited
Biological Process (BP)regulation of protein phosphorylation1.563e-053.083e-08InformativeDirect
Biological Process (BP)phosphorylation4.446e-075.174e-09InformativeDirect
Biological Process (BP)regulation of kinase activity2.692e-062.738e-09InformativeDirect
Biological Process (BP)protein phosphorylation2.614e-084.234e-10Highly InformativeDirect
Molecular Function (MF)binding0.000270.02084Least InformativeInherited
Molecular Function (MF)enzyme regulator activity0.00017113.802e-08Moderately InformativeDirect
Molecular Function (MF)transferase activity, transferring phosphorus-containing groups0.00054170.003156Moderately InformativeInherited
Molecular Function (MF)phosphotransferase activity, alcohol group as acceptor6.179e-050.0008554InformativeDirect
Molecular Function (MF)kinase activity0.00022350.001443InformativeInherited
Molecular Function (MF)protein kinase activity1.606e-050.0002084Highly InformativeDirect
Molecular Function (MF)protein kinase regulator activity1.023e-091.558e-15Highly InformativeDirect
Cellular Component (CC)protein complex4.316e-051.858e-05Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0019750.06477Least InformativeInherited
Cellular Component (CC)protein kinase CK2 complex2.925e-110Highly 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 0.0006014 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.2202 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.4355 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.004146 Least Informative Inherited
Biological Process (BP) cellular protein modification process 9.754e-06 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 2.214e-05 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 3.581e-06 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 9.215e-06 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 6.772e-06 Moderately Informative Direct
Biological Process (BP) regulation of protein phosphorylation 3.083e-08 Informative Direct
Biological Process (BP) phosphorylation 5.174e-09 Informative Direct
Biological Process (BP) regulation of kinase activity 2.738e-09 Informative Direct
Biological Process (BP) protein phosphorylation 4.234e-10 Highly Informative Direct
Molecular Function (MF) binding 0.02084 Least Informative Inherited
Molecular Function (MF) enzyme regulator activity 3.802e-08 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 0.003156 Moderately Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.0008554 Informative Direct
Molecular Function (MF) kinase activity 0.001443 Informative Inherited
Molecular Function (MF) protein kinase activity 0.0002084 Highly Informative Direct
Molecular Function (MF) protein kinase regulator activity 1.558e-15 Highly Informative Direct
Cellular Component (CC) protein complex 1.858e-05 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.06477 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)flower0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant ANatomical entity (PAN)portion of meristem tissue0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)cotyledon0Moderately InformativeDirect
Plant ANatomical entity (PAN)inflorescence meristem0Moderately 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)LP.02 two leaves visible stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon 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 splicing5.642e-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 ]