MolNFT v1 · #168176 · protein
Structure of PAP3 small terminase
6W7T · Small terminase subunit: “Structure of PAP3 small terminase”. X-ray diffraction, 17 pockets (best druggability 0.64). MolNFT v1 #168176 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6W7T
- Type
- protein
- Length
- 966 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Small terminase subunit
- UniProt
- Q8H9R5
- Pockets
- 17 · best druggability 0.64
Structure
x-ray diffraction · 6 distinct chains · 68% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I, E | Small terminase subunit | protein | 107 | 69% helix, 6% strand | Q8H9R5 |
| A | Small terminase subunit | protein | 107 | 69% helix, 5% strand | Q8H9R5 |
| B, D | Small terminase subunit | protein | 109 | 67% helix, 5% strand | Q8H9R5 |
| C, G | Small terminase subunit | protein | 108 | 69% helix, 6% strand | Q8H9R5 |
| F | Small terminase subunit | protein | 108 | 66% helix, 7% strand | Q8H9R5 |
| H | Small terminase subunit | protein | 103 | 69% helix, 6% strand | Q8H9R5 |
Pockets
17 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 520 | 0.64 | 0.76 | 51 | empty |
| 2 | 432 | 0.64 | 0.78 | 38 | empty |
| 3 | 254 | 0.63 | 0.81 | 40 | empty |
| 4 | 417 | 0.62 | 0.77 | 50 | empty |
| 5 | 329 | 0.60 | 0.77 | 36 | empty |
Interfaces
18 interfaces between chains.
- I–A · 1844 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 1694 Ų buried · 13 hydrogen bonds · protein-protein
- G–H · 1616 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1583 Ų buried · 15 hydrogen bonds · protein-protein
- F–G · 1577 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 6W7T · Structure of PaP3 small terminase · the same entry in another collection · chain I against I, 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 Q8H9R5
- Elsewhere: RCSB PDB 6W7T · PDBe 6W7T · UniProt Q8H9R5
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