Research workbench
Fitting of the GP6 crystal structure into 3D cryo-EM reconstruction of bacteriophage T4 star-shaped baseplate
Analyse Fitting of the GP6 crystal structure into 3D cryo-EM reconstruction of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3H3Y
- Type
- protein
- Length
- 3,900 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Baseplate structural protein GP6
- UniProt
- P19060
- Pockets
- 20 · best druggability 0.69
Structure
electron microscopy · 2 distinct chains · 17% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | Baseplate structural protein GP6 | protein | 326 | 14% helix, 30% strand | P19060 |
| B, D, F, H, J, L | Baseplate structural protein GP6 | protein | 324 | 19% helix, 32% strand | P19060 |
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 | 142 | 0.69 | 0.89 | 29 | empty |
| 2 | 146 | 0.68 | 0.88 | 26 | empty |
| 3 | 146 | 0.68 | 0.88 | 26 | empty |
| 4 | 142 | 0.67 | 0.88 | 26 | empty |
| 5 | 149 | 0.67 | 0.87 | 28 | empty |
Interfaces
12 interfaces between chains.
- I–J · 1118 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 1116 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1115 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 1115 Ų buried · 14 hydrogen bonds · protein-protein
- K–L · 1114 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 3H3Y · Fitting of the gp6 crystal structure into 3D cryo-EM reconstruction of bacteriophage T4… · 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 P19060
- Elsewhere: RCSB PDB 3H3Y · PDBe 3H3Y · UniProt P19060
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