Research workbench
Crystal structure of the T(-28) adenovirus major late promoter tata box variant bound to wild-type tbp (arabidopsis thaliana tbp isoform 2). tata element recognition by the tata box-binding protein has been conserved throughout evolution.
Analyse Crystal structure of the T(-28) adenovirus major late promoter tata box variant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QN8
- Type
- protein + DNA
- Length
- 426 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription initiation factor tfiid-1; DNA (5'-D(*GP*CP*TP*AP*TP*TP*AP*AP*AP*GP*GP*GP*CP…
- UniProt
- P28147
- Pockets
- 3 · best druggability 0.37
Structure
x-ray diffraction · 4 distinct chains · 26% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription initiation factor tfiid-1 | protein | 183 | 26% helix, 34% strand | P28147 |
| B | Transcription initiation factor tfiid-1 | protein | 187 | 26% helix, 35% strand | P28147 |
| C, E | DNA (5'-D(*GP*CP*TP*AP*TP*TP*AP*AP*AP*GP*GP*GP*CP*A)-3') | dna | 14 | — | — |
| D, F | DNA (5'-D(*TP*GP*CP*CP*CP*TP*TP*TP*AP*AP*TP*AP*GP*C)-3') | dna | 14 | — | — |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 145 | 0.37 | 0.72 | 19 | empty |
| 2 | 144 | 0.37 | 0.72 | 19 | empty |
| 3 | 81 | 0.31 | 0.73 | 25 | empty |
Interfaces
7 interfaces between chains.
- A–D · 890 Ų buried · 8 hydrogen bonds · protein-nucleic
- B–F · 856 Ų buried · 10 hydrogen bonds · protein-nucleic
- B–E · 817 Ų buried · 6 hydrogen bonds · protein-nucleic
- A–C · 808 Ų buried · 6 hydrogen bonds · protein-nucleic
- C–D · 620 Ų buried · 65 hydrogen bonds · nucleic-nucleic
Compared structures
- 1QN8 · Crystal structure of the T(-28) Adenovirus major late promoter TATA box variant bound to… · the same entry in another collection · chain F against F, TM-score 1.00
- P28147 · AlphaFold monomer V2.0 prediction for tata-box-binding protein 1 (P28147) · a predicted model of the same protein · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P28147
- Elsewhere: RCSB PDB 1QN8 · PDBe 1QN8 · UniProt P28147
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