Summary
TATA-binding protein like
TBP is a transcription factor whose DNA binding fold is composed of a curved antiparallel beta-sheet [1]. This fold is also found in the N terminal region of DNA repair glycosylases. The N terminal domain of DNA glycosylase has only a single copy of the fold, whereas TBP contains a duplication of this fold [2-3].
This clan contains 10 families and the total number of domains in the clan is 18297. The clan was built by J Mistry and RD Finn.
Literature references
- Nikolov DB, Hu SH, Lin J, Gasch A, Hoffmann A, Horikoshi M, Chua NH, Roeder RG, Burley SK; , Nature 1992;360:40-46.: Crystal structure of TFIID TATA-box binding protein. PUBMED:1436073 EPMC:1436073
- Fromme JC, Banerjee A, Verdine GL;, Curr Opin Struct Biol. 2004;14:43-49.: DNA glycosylase recognition and catalysis. PUBMED:15102448 EPMC:15102448
- Hollis T, Lau A, Ellenberger T;, Prog Nucleic Acid Res Mol Biol. 2001;68:305-314.: Crystallizing thoughts about DNA base excision repair. PUBMED:11554308 EPMC:11554308
Members
This clan contains the following 10 member families:
AdoMet_dc AlkA_N DUF3378 DUF5611 OGG_N Phage_CRI Rep_trans Rol_Rep_N SpmSyn_N TBPExternal database links
SCOP: | 55945 |
Domain organisation
Below is a listing of the unique domain organisations or architectures from this clan. More...
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Alignments
The table below shows the number of occurrences of each domain throughout the sequence database. More...
Pfam family | Num. domains | Alignment |
---|---|---|
TBP (PF00352) | 7937 (43.4%) | View |
AdoMet_dc (PF02675) | 3225 (17.6%) | View |
OGG_N (PF07934) | 2588 (14.1%) | View |
AlkA_N (PF06029) | 2295 (12.5%) | View |
Rep_trans (PF02486) | 595 (3.3%) | View |
DUF3378 (PF11858) | 530 (2.9%) | View |
SpmSyn_N (PF17950) | 425 (2.3%) | View |
Rol_Rep_N (PF18106) | 340 (1.9%) | View |
Phage_CRI (PF05144) | 191 (1.0%) | View |
DUF5611 (PF18446) | 171 (0.9%) | View |
Total: 10 | Total: 18297 | Clan alignment |
Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.
Family relationships
This diagram shows the relationships between members of this clan. More...
Species distribution
Tree controls
HideThis tree shows the occurrence of the domains in this clan across different species. More...
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Structures
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.
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