Research workbench
Crystal structure of vbrr-DNA complex
Analyse Crystal structure of vbrr-DNA complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E1B
- Type
- protein + DNA
- Length
- 1,772 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-binding response regulator; DNA (26-mer)
- UniProt
- A0A0L8SKF9
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 6 distinct chains · 35% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | DNA-binding response regulator | protein | 209 | 33% helix, 16% strand | A0A0L8SKF9 |
| B, D | DNA-binding response regulator | protein | 208 | 38% helix, 16% strand | A0A0L8SKF9 |
| E, G | DNA-binding response regulator | protein | 209 | 34% helix, 22% strand | A0A0L8SKF9 |
| F, H | DNA-binding response regulator | protein | 208 | 36% helix, 15% strand | A0A0L8SKF9 |
| Y, I | DNA (26-mer) | dna | 26 | — | — |
| Z, J | DNA (26-mer) | dna | 26 | — | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 792 | 0.87 | 0.89 | 96 | empty |
| 2 | 889 | 0.84 | 0.86 | 103 | empty |
| 3 | 189 | 0.81 | 0.95 | 26 | empty |
| 4 | 899 | 0.80 | 0.82 | 99 | empty |
| 5 | 130 | 0.78 | 0.95 | 37 | empty |
Interfaces
36 interfaces between chains.
- A–B · 1279 Ų buried · 11 hydrogen bonds · protein-protein
- G–H · 1267 Ų buried · 17 hydrogen bonds · protein-protein
- E–F · 1246 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1240 Ų buried · 9 hydrogen bonds · protein-protein
- Y–Z · 1183 Ų buried · 107 hydrogen bonds · nucleic-nucleic
Compared structures
- 7E1B · Crystal structure of VbrR-DNA complex · the same entry in another collection · chain A against A, TM-score 1.00
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 A0A0L8SKF9
- Elsewhere: RCSB PDB 7E1B · PDBe 7E1B · UniProt A0A0L8SKF9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.