Research workbench
Crystal structure of a C-terminally truncated small terminase protein from the thermophilic bacteriophage G20C
Analyse Crystal structure of a C-terminally truncated small terminase protein from the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6EJQ
- Type
- protein
- Length
- 1,146 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Terminase small subunit
- UniProt
- A0A1L4BKP6
- Pockets
- 20 · best druggability 0.67
Structure
x-ray diffraction · 9 distinct chains · 74% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Terminase small subunit | protein | 138 | 72% helix, 1% strand | A0A1L4BKP6 |
| B | Terminase small subunit | protein | 141 | 75% helix, 1% strand | A0A1L4BKP6 |
| C | Terminase small subunit | protein | 137 | 73% helix, 1% strand | A0A1L4BKP6 |
| D | Terminase small subunit | protein | 134 | 75% helix, 1% strand | A0A1L4BKP6 |
| E | Terminase small subunit | protein | 103 | 69% helix, 2% strand | A0A1L4BKP6 |
| F | Terminase small subunit | protein | 139 | 77% helix, 1% strand | A0A1L4BKP6 |
| G | Terminase small subunit | protein | 132 | 77% helix, 2% strand | A0A1L4BKP6 |
| H | Terminase small subunit | protein | 137 | 75% helix, 1% strand | A0A1L4BKP6 |
| I | Terminase small subunit | protein | 85 | 74% helix, 2% strand | A0A1L4BKP6 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 644 | 0.67 | 0.76 | 62 | empty |
| 2 | 525 | 0.66 | 0.77 | 56 | empty |
| 3 | 500 | 0.65 | 0.77 | 45 | empty |
| 4 | 510 | 0.64 | 0.76 | 54 | empty |
| 5 | 420 | 0.61 | 0.76 | 44 | empty |
Interfaces
17 interfaces between chains.
- F–H · 1752 Ų buried · 11 hydrogen bonds · protein-protein
- B–H · 1745 Ų buried · 10 hydrogen bonds · protein-protein
- B–E · 1705 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 1696 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 1694 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 6EJQ · Crystal structure of a C-terminally truncated small terminase protein from the… · 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 A0A1L4BKP6
- Elsewhere: RCSB PDB 6EJQ · PDBe 6EJQ · UniProt A0A1L4BKP6
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