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Crystal structure of prophage MUSO2, 43 kda tail protein from shewanella oneidensis
Analyse Crystal structure of prophage MUSO2, 43 kda tail protein from shewanella… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CDD
- Type
- protein
- Length
- 1,960 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prophage MUSO2, 43 kda tail protein
- UniProt
- Q8EDP4
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 6 distinct chains · 15% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Prophage MUSO2, 43 kda tail protein | protein | 328 | 14% helix, 43% strand | Q8EDP4 |
| B | Prophage MUSO2, 43 kda tail protein | protein | 326 | 16% helix, 42% strand | Q8EDP4 |
| C | Prophage MUSO2, 43 kda tail protein | protein | 328 | 14% helix, 42% strand | Q8EDP4 |
| D | Prophage MUSO2, 43 kda tail protein | protein | 331 | 15% helix, 41% strand | Q8EDP4 |
| E | Prophage MUSO2, 43 kda tail protein | protein | 322 | 15% helix, 43% strand | Q8EDP4 |
| F | Prophage MUSO2, 43 kda tail protein | protein | 325 | 16% helix, 44% strand | Q8EDP4 |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 815 | 0.78 | 0.82 | 81 | empty |
| 2 | 469 | 0.65 | 0.77 | 56 | empty |
| 3 | 400 | 0.64 | 0.78 | 44 | empty |
| 4 | 406 | 0.63 | 0.78 | 44 | empty |
| 5 | 255 | 0.57 | 0.78 | 26 | empty |
Interfaces
8 interfaces between chains.
- B–C · 1462 Ų buried · 28 hydrogen bonds · protein-protein
- D–F · 1440 Ų buried · 25 hydrogen bonds · protein-protein
- A–B · 1381 Ų buried · 27 hydrogen bonds · protein-protein
- D–E · 1375 Ų buried · 25 hydrogen bonds · protein-protein
- A–C · 1370 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 36 modified (engineered).
Compared structures
- 3CDD · Crystal structure of prophage MuSo2, 43 kDa tail protein from Shewanella oneidensis · 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 Q8EDP4
- Elsewhere: RCSB PDB 3CDD · PDBe 3CDD · UniProt Q8EDP4
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