Research workbench
Tubr bound to tubc - 26 bp - from bacillus thuringiensis serovar israelensis pbtoxis
Analyse Tubr bound to tubc - 26 bp - from bacillus thuringiensis serovar israelensis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ASS
- Type
- protein + DNA
- Length
- 889 residues
- Chains
- 11
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tubr from bacillus thuringiensis pbtoxis; Tubc from bacillus thuringiensis pbtoxis 26 bp
- UniProt
- Q8KNP2
- Pockets
- 16 · best druggability 0.67
Structure
x-ray diffraction · 3 distinct chains · 55% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I | Tubr from bacillus thuringiensis pbtoxis | protein | 93 | 55% helix, 19% strand | Q8KNP2 |
| Y | Tubc from bacillus thuringiensis pbtoxis 26 bp | dna | 26 | — | — |
| Z | Tubc from bacillus thuringiensis pbtoxis 26 bp | dna | 26 | — | — |
Pockets
16 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 560 | 0.67 | 0.78 | 55 | empty |
| 2 | 362 | 0.63 | 0.79 | 44 | empty |
| 3 | 140 | 0.46 | 0.77 | 26 | empty |
| 4 | 86 | 0.42 | 0.79 | 23 | empty |
| 5 | 65 | 0.38 | 0.79 | 16 | empty |
Interfaces
19 interfaces between chains.
- G–H · 1223 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1222 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 1219 Ų buried · 8 hydrogen bonds · protein-protein
- E–F · 1210 Ų buried · 8 hydrogen bonds · protein-protein
- Y–Z · 1164 Ų buried · 92 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 27 modified (engineered).
Compared structures
- 4ASS · TubR bound to tubC - 26 bp - from Bacillus thuringiensis serovar israelensis pBtoxis · the same entry in another collection · chain Z against Z, TM-score 1.00
- Q8KNP2 · AlphaFold monomer V2.0 prediction for DNA-binding transcriptional repressor tubr (Q8KNP2) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q8KNP2
- Elsewhere: RCSB PDB 4ASS · PDBe 4ASS · UniProt Q8KNP2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.