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138  structures 2007  species 5  interactions 3848  sequences 32  architectures

Clan: TBP-like (CL0407)

Summary

TATA-binding protein like Add an annotation

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 3 families and the total number of domains in the clan is 3848. The clan was built by J Mistry and RD Finn.

Literature references

  1. 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
  2. Fromme JC, Banerjee A, Verdine GL;, Curr Opin Struct Biol. 2004;14:43-49.: DNA glycosylase recognition and catalysis. PUBMED:15102448 EPMC:15102448
  3. 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 3 member families:

AlkA_N OGG_N TBP

External database links

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) 1985 (51.6%) View
AlkA_N (PF06029) 1096 (28.5%) View
OGG_N (PF07934) 767 (19.9%) View
Total: 3 Total: 3848 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 5 interactions for this clan. More...

Interacting families
A B
AlkA_N HhH-GPD
AlkA_N
TBP TBP
TFIIA_gamma_C
OGG_N HhH-GPD

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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