Research workbench
Structure of the carboxy-terminal domain of the bacteriophage T5 L- shaped tail fiber with its intra-molecular chaperone domain
Analyse Structure of the carboxy-terminal domain of the bacteriophage T5 L- shaped tail… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UW8
- Type
- protein
- Length
- 3,608 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-shaped tail fiber protein
- UniProt
- P13390
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, H, I | L-shaped tail fiber protein | protein | 401 | 17% helix, 38% strand | P13390 |
| G | L-shaped tail fiber protein | protein | 400 | 17% helix, 38% strand | P13390 |
Ligands and binding sites
- FLC · Citrate anion · additive · 9 copies · chains A, B, C, D, E, F, G, H, I
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 70 | 0.73 | 0.97 | 20 | empty |
| 2 | 69 | 0.73 | 0.97 | 20 | empty |
| 3 | 69 | 0.72 | 0.97 | 20 | empty |
| 4 | 64 | 0.71 | 0.97 | 20 | empty |
| 5 | 59 | 0.71 | 0.98 | 18 | empty |
Interfaces
18 interfaces between chains.
- A–B · 8855 Ų buried · 165 hydrogen bonds · protein-protein
- D–F · 8848 Ų buried · 166 hydrogen bonds · protein-protein
- E–F · 8835 Ų buried · 163 hydrogen bonds · protein-protein
- G–I · 8829 Ų buried · 162 hydrogen bonds · protein-protein
- B–C · 8826 Ų buried · 168 hydrogen bonds · protein-protein
Compared structures
- 4UW8 · Structure of the carboxy-terminal domain of the bacteriophage T5 L- shaped tail fiber… · 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 P13390
- Elsewhere: RCSB PDB 4UW8 · PDBe 4UW8 · UniProt P13390
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