Research workbench
Bacteriophage EMS014 coat protein
Analyse Bacteriophage EMS014 coat protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YFI
- Type
- protein
- Length
- 592 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coat protein
- Pockets
- 7 · best druggability 0.49
Structure
x-ray diffraction · 2 distinct chains · 19% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Coat protein | protein | 151 | 20% helix, 34% strand | — |
| B, C | Coat protein | protein | 145 | 17% helix, 36% strand | — |
Pockets
7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 245 | 0.49 | 0.74 | 32 | empty |
| 2 | 142 | 0.45 | 0.77 | 26 | empty |
| 3 | 99 | 0.40 | 0.76 | 21 | empty |
| 4 | 85 | 0.39 | 0.77 | 18 | empty |
| 5 | 99 | 0.38 | 0.75 | 17 | empty |
Interfaces
4 interfaces between chains.
- C–D · 4085 Ų buried · 38 hydrogen bonds · protein-protein
- A–B · 4071 Ų buried · 38 hydrogen bonds · protein-protein
- A–C · 217 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 72 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6YFI · Bacteriophage EMS014 coat protein · 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
- Elsewhere: RCSB PDB 6YFI · PDBe 6YFI
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