B3 domain
| B3 DNA binding domain | |||||||||
|---|---|---|---|---|---|---|---|---|---|
B3 DNA binding domain of RAV1
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| Identifiers | |||||||||
| Symbol | B3_domain | ||||||||
| Pfam | PF02362 | ||||||||
| InterPro | IPR003340 | ||||||||
| PROSITE | PS50863 | ||||||||
| SCOP | 1wid | ||||||||
| SUPERFAMILY | 1wid | ||||||||
| CDD | cd10017 | ||||||||
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The B3 DNA binding domain (DBD) is a highly conserved domain found exclusively in transcription factors, from higher plants (≥40 species) (Pfam PF02362) combined with other domains (IPR003340). It consists of 100-120 residues, includes seven beta strands and two alpha helices that form a DNA-binding pseudobarrel protein fold (SCOP 117343); it interacts with the major groove of DNA.[1]
B3 families
In Arabidopsis thaliana, there are three main families of transcription factors that contain B3 domain:[2]
- ARF (Auxin Response Factors)
- ABI3 (ABscisic acid Insensitive3)
- RAV (Related to ABI3/VP1)
| protein | ARF1-B3 | ABI3-B3 | RAV1-B3 |
|---|---|---|---|
| B3 structure derived by | molecular model[1] | molecular model[1] | NMR[1] |
| B3 recognition sequence | TGTCTC[3][4] | CATGCA[5][6] | CACCTG[7] |
PDB: 1WID[1] and PDB: 1YEL[8] are only known NMR solution phase structures of the B3 DNA Binding Domain.
Related proteins
The N-terminal domain of restriction endonuclease EcoRII; the C-terminal domain of restriction endonuclease BfiI possess a similar DNA-binding pseudobarrel protein fold.[9][10]
See also
- Restriction endonuclease EcoRII
- Auxin
- Abscisic acid
References
- ↑ 1.0 1.1 1.2 1.3 1.4 Lua error in package.lua at line 80: module 'strict' not found.
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External links
- DBD database of predicted transcription factorsLua error in package.lua at line 80: module 'strict' not found. Uses a curated set of DNA-binding domains to predict transcription factors in all completely sequenced genomes
- Classification in the "Transcription factors" table according to the Transfac database.
- Database of Arabidopsis Transcription Factors
- B3, RAV, and ARF family at PlantTFDB:Plant Transcription Factor Database
