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Telomeric repeat binding factor (TRF) dimerisation domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Telomeric repeat binding factor (TRF) dimerisation domain [ 63599]
Superfamily:   Telomeric repeat binding factor (TRF) dimerisation domain [ 63600]
Families:   Telomeric repeat binding factor (TRF) dimerisation domain [ 63601] (2)


Superfamily statistics
Genomes (71) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 194 353 5
Proteins 187 349 5


Functional annotation
General category Processes_IC
Detailed category Cell cycle, Apoptosis

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) heterocycle metabolic process 0.0002657 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.0002866 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0004659 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0005787 Least Informative Direct
Biological Process (BP) primary metabolic process 0.03384 Least Informative Inherited
Biological Process (BP) macromolecule metabolic process 0.005869 Least Informative Inherited
Biological Process (BP) biological regulation 0.1195 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.003574 Least Informative Inherited
Biological Process (BP) organelle organization 0.0000844 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.000125 Moderately Informative Direct
Biological Process (BP) DNA metabolic process 0.00000004822 Informative Direct
Biological Process (BP) chromosome organization 0.00000008925 Informative Direct
Biological Process (BP) anatomical structure homeostasis 0.00000000002495 Highly Informative Direct
Molecular Function (MF) binding 0.001199 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.0000000003243 Moderately Informative Direct
Molecular Function (MF) DNA binding 0.000000000002791 Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.000000000000004728 Highly Informative Direct
Molecular Function (MF) double-stranded DNA binding 0.209 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.00002936 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.07932 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01588 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.00005149 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.002522 Moderately Informative Inherited
Cellular Component (CC) chromosome 0.0000009439 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome0InformativeDirect
Cellular componentTelomere0Highly InformativeDirect
Post-translational modificationDNA-binding0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.000001835Least InformativeDirect
Post-translational modificationIsopeptide bond0.00000000002624Moderately InformativeDirect
Post-translational modificationUbl conjugation0.0000000002167Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR013867 SSF63600 Protein matches
Abstract

Telomeres function to shield chromosome ends from degradation and end-to-end fusions, as well as preventing the activation of DNA damage checkpoints. Telomeric repeat binding factor (TRF) proteins TRF1 and TRF2 are major components of vertebrate telomeres required for regulation of telomere stability. TRF1 and TRF2 bind to telomeric DNA as homodimers. Dimerisation involves the TRF homology (TRFH) subdomain contained within the dimerisation domain. The TRFH subdomain is important not only for dimerisation, but for DNA binding, telomere localisation, and interactions with other telomeric proteins. The dimerisation domains of TRF1 and TRF2 show the same multi-helical structure, arranged in a solenoid conformation similar to TPR repeats, which can be divided into an alpha-alpha superhelix and a long alpha hairpin [PubMed11545737].

The two related human TRF proteins hTRF1 and hTRF2 form homodimers and bind directly to telomeric TTAGGG repeats via the myb DNA binding domain at the carboxy terminus [PubMed15316005]. TRF1 is implicated in telomere length regulation and TRF2 in telomere protection [PubMed15316005]. Other telomere complex associated proteins are recruited through their interaction with either TRF1 or TRF2. The fission yeast protein Taz1p (telomere-associated in Schizosaccharomyces pombe (Fission yeast)) has similarity to both hTRF1 and hTRF2 and may perform the dual functions of TRF1 and TRF2 at fission yeast telomeres [PubMed9034194].


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) · 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 Telomeric repeat binding factor (TRF) dimerisation domain 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 Telomeric repeat binding factor (TRF) dimerisation domain 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) · UniProtKB KeyWords (KW) · Internal database links ]