MolNFT v1 · #166061 · protein + DNA
Crystal form 2: structure of tbp bound to C-C mismatch at pH 7
6UER · Tata-box-binding protein 1: “Crystal form 2: structure of tbp bound to C-C mismatch at pH 7”. X-ray diffraction, 2 pockets (best druggability 0.74). MolNFT v1 #166061 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6UER
- Type
- protein + DNA
- Length
- 430 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tata-box-binding protein 1; DNA (5'-D(*GP*CP*TP*AP*TP*AP*AP*AP*CP*GP*GP*GP*CP*A)-3'); DNA…
- UniProt
- P28147
- Pockets
- 2 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 25% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Tata-box-binding protein 1 | protein | 187 | 25% helix, 36% strand | P28147 |
| C, E | DNA (5'-D(*GP*CP*TP*AP*TP*AP*AP*AP*CP*GP*GP*GP*CP*A)-3') | dna | 14 | — | — |
| D, F | DNA (5'-D(*TP*GP*CP*CP*CP*CP*TP*TP*TP*AP*TP*AP*GP*C)-3') | dna | 14 | — | — |
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 982 | 0.74 | 0.78 | 54 | empty |
| 2 | 435 | 0.59 | 0.75 | 43 | empty |
Interfaces
12 interfaces between chains.
- B–E · 805 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–C · 783 Ų buried · 6 hydrogen bonds · protein-nucleic
- B–F · 773 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–D · 760 Ų buried · 6 hydrogen bonds · protein-nucleic
- E–F · 630 Ų buried · 50 hydrogen bonds · nucleic-nucleic
Compared structures
- 6UER · Crystal form 2: Structure of TBP bound to C-C mismatch at pH 7 · the same entry in another collection · chain D against D, 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 6UER · PDBe 6UER · UniProt P28147
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.