Research workbench
Crystal structure of TetR family protein Rv0078 in complex with DNA
Analyse Crystal structure of TetR family protein Rv0078 in complex with DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6C31
- Type
- protein + DNA
- Length
- 1,643 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3
- Source
- Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv); SYNTHETIC CONSTRUCT
- Molecule
- TetR family transcriptional regulator; DNA (5'-D(P*AP*CP*AP*AP*GP*CP*AP*GP*AP*CP*TP*GP*CP*…
- UniProt
- L0T5M0
- Pockets
- 18 · best druggability 0.88
Structure
x-ray diffraction · resolution 3 · 4 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F, G | TetR family transcriptional regulator | protein | 195 | 81% helix, 0% strand | L0T5M0 |
| C, D, H | TetR family transcriptional regulator | protein | 194 | 81% helix, 0% strand | L0T5M0 |
| I, K | DNA (5'-D(P*AP*CP*AP*AP*GP*CP*AP*GP*AP*CP*TP*GP*CP*CP*GP*GP*TP*AP*AP*C)-3') | dna | 20 | — | — |
| J, L | DNA (5'-D(*GP*TP*TP*AP*CP*CP*GP*GP*CP*AP*GP*TP*CP*TP*GP*CP*TP*TP*GP*TP*AP*AP*A)-3') | dna | 23 | — | — |
Pockets
18 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 401 | 0.88 | 0.96 | 78 | empty |
| 2 | 390 | 0.88 | 0.96 | 71 | empty |
| 3 | 449 | 0.88 | 0.95 | 85 | empty |
| 4 | 312 | 0.86 | 0.95 | 59 | empty |
| 5 | 78 | 0.76 | 0.98 | 18 | empty |
Interfaces
25 interfaces between chains.
- E–H · 1596 Ų buried · 2 hydrogen bonds · protein-protein
- F–G · 1591 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 1574 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 1569 Ų buried · 2 hydrogen bonds · protein-protein
- K–L · 924 Ų buried · 69 hydrogen bonds · nucleic-nucleic
Compared structures
- 6C31 · Crystal structure of tetr family protein RV0078 in complex with DNA · 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 L0T5M0
- Elsewhere: RCSB PDB 6C31 · PDBe 6C31 · UniProt L0T5M0
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