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TATA-box binding protein-like superfamily
SCOP classification
Superfamily statistics
Functional annotation
| General category | Information |
| Detailed category | Transcription |
Function annotation of SCOP domain superfamilies
InterPro annotation
| Cross references | IPR012294 SSF55945 Protein matches |
| Abstract | Transcription factor TFIID (also known as TATA-binding protein, TBP) is a general factor that plays a central role in the activation of eukaryotic genes transcribed by RNA polymerase II [ 2374612, 2197561]. TFIID binds specifically to the TATA-box promoter element, which lies close to the position of transcription initiation. The C-terminal domain (~180 residues) of eukaryotic TFIID sequences is highly conserved and is involved in TATA-box binding. The most striking feature of the domain is the presence of 2 conserved 77 amino-acid repeats. The symmetrical disposition of these features generates a saddle-shaped structure that straddles the DNA [1436073].
DNA glycosylases are involved in the repair of damaged bases in DNA, acting to cleave the bond between the damaged, modified base and the deoxyribose sugar backbone of the DNA. These DNA repair activities are conserved from bacteria to man. Different DNA glycosylases can have different overall folds, even though many of them work by a common mechanism, involving bending the DNA and clamping on to the damaged base to excise it. This entry is represented by 3-methyladenine DNA glycosylase II (AlkA) from Escherichia coli and human 8-oxoguanine glycosylase , whose N-terminal domains display a beta-alpha-beta(4)-alpha fold similar to that found in the C-terminal domain of TFIID. However, unlike TFIID, which contains a duplication of this fold, these DNA glycosylases carry only a single copy of this fold [15102448, 11554308].
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InterPro database
PDBeMotif information about ligands, sequence and structure motifs
PDBeMotif resource
Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation ]
Internal database links
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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.
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Alignments of sequences to 12 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.
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Browse and view proteins in genomes which have
different domain combinations including a TATA-box binding protein-like domain.
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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.
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Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.
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There are 12 hidden Markov models representing the TATA-box binding protein-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.
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Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Internal database links ]
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