MolNFT v1 · #189228 · protein + DNA
Crystal structure of heterohexameric SA2YOEB-SA2YEFM complex bound to 26BP-DNA
7V6W · Putative mRNA interferase yoeb: “Crystal structure of heterohexameric SA2YOEB-SA2YEFM complex bound to 26BP-DNA”. X-ray diffraction, 19 pockets (best druggability 0.84). MolNFT v1 #189228 on GenesisL1: 3D structure, binding sites…
- PDB
- 7V6W
- Type
- protein + DNA
- Length
- 1,022 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative mRNA interferase yoeb; Antitoxin; DNA (26-mer); DNA (25-mer)
- UniProt
- Q2FVF8, Q2FVF7
- Pockets
- 19 · best druggability 0.84
Structure
x-ray diffraction · 10 distinct chains · 46% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F, M, N | Putative mRNA interferase yoeb | protein | 88 | 31% helix, 28% strand | Q2FVF8 |
| B, L, J | Antitoxin | protein | 85 | 55% helix, 16% strand | Q2FVF7 |
| C, I | Antitoxin | protein | 56 | 54% helix, 20% strand | Q2FVF7 |
| A, K | Antitoxin | protein | 58 | 55% helix, 19% strand | Q2FVF7 |
| E | Putative mRNA interferase yoeb | protein | 89 | 31% helix, 27% strand | Q2FVF8 |
| D | Antitoxin | protein | 84 | 55% helix, 17% strand | Q2FVF7 |
| G | DNA (26-mer) | dna | 26 | — | — |
| H | DNA (25-mer) | dna | 25 | — | — |
| P | DNA (25-mer) | dna | 26 | — | — |
| O | DNA (26-mer) | dna | 25 | — | — |
Pockets
19 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 425 | 0.84 | 0.92 | 54 | empty |
| 2 | 445 | 0.84 | 0.92 | 50 | empty |
| 3 | 655 | 0.78 | 0.84 | 57 | empty |
| 4 | 670 | 0.78 | 0.83 | 59 | empty |
| 5 | 282 | 0.53 | 0.76 | 46 | empty |
Interfaces
60 interfaces between chains.
- B–E · 1535 Ų buried · 29 hydrogen bonds · protein-protein
- M–J · 1518 Ų buried · 31 hydrogen bonds · protein-protein
- L–N · 1513 Ų buried · 35 hydrogen bonds · protein-protein
- F–D · 1503 Ų buried · 34 hydrogen bonds · protein-protein
- B–A · 1469 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 7V6W · Crystal structure of heterohexameric Sa2YoeB-Sa2YefM complex bound to 26bp-DNA · the same entry in another collection · chain F against F, 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 Q2FVF8
- Every structure of UniProt Q2FVF7
- Elsewhere: RCSB PDB 7V6W · PDBe 7V6W · UniProt Q2FVF8 · UniProt Q2FVF7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.