MolNFT v1 · #156522 · protein + RNA
Crystal structure the toxin-antitoxin mnta-hept
6M6V · Toxin-antitoxin system antidote mnt family: “Crystal structure the toxin-antitoxin mnta-hept”. X-ray diffraction, 8 pockets (best druggability 0.62). MolNFT v1 #156522 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6M6V
- Type
- protein + RNA
- Length
- 522 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Toxin-antitoxin system antidote mnt family; Toxin-antitoxin system toxin hepn family; RNA…
- UniProt
- Q8ECH7, Q8ECH6
- Pockets
- 8 · best druggability 0.62
Structure
x-ray diffraction · 3 distinct chains · 66% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Toxin-antitoxin system antidote mnt family | protein | 117 | 56% helix, 20% strand | Q8ECH7 |
| B, C, D | Toxin-antitoxin system toxin hepn family | protein | 132 | 76% helix, 0% strand | Q8ECH6 |
| E, F, G | RNA (5'-R(P*AP*AP*A)-3') | rna | 3 | — | — |
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 303 | 0.62 | 0.79 | 46 | empty |
| 2 | 292 | 0.57 | 0.77 | 37 | empty |
| 3 | 143 | 0.51 | 0.80 | 22 | empty |
| 4 | 161 | 0.40 | 0.73 | 20 | empty |
| 5 | 61 | 0.33 | 0.76 | 16 | empty |
Interfaces
9 interfaces between chains.
- B–C · 834 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 783 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 701 Ų buried · 10 hydrogen bonds · protein-protein
- C–F · 559 Ų buried · 12 hydrogen bonds · protein-nucleic
- B–E · 556 Ų buried · 12 hydrogen bonds · protein-nucleic
Compared structures
- 6M6V · Crystal structure the toxin-antitoxin MntA-HepT · the same entry in another collection · chain G against G, TM-score 1.00
- Q8ECH6 · AlphaFold monomer V2.0 prediction for mRNA nuclease hept (Q8ECH6) · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q8ECH7 · AlphaFold monomer V2.0 prediction for protein adenylyltransferase mnta (Q8ECH7) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q8ECH7
- Every structure of UniProt Q8ECH6
- Elsewhere: RCSB PDB 6M6V · PDBe 6M6V · UniProt Q8ECH7 · UniProt Q8ECH6
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