Research workbench
Herpes simplex virus type 1 (HSV-1) PUL6 portal protein, dodecameric complex
Analyse Herpes simplex virus type 1 (HSV-1) PUL6 portal protein, dodecameric complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OD7
- Type
- protein
- Length
- 4,596 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Portal protein
- UniProt
- H9E912
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 1 distinct chain · 58% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Portal protein | protein | 383 | 58% helix, 7% strand | H9E912 |
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 | 1037 | 0.89 | 0.90 | 162 | empty |
| 2 | 1101 | 0.88 | 0.89 | 156 | empty |
| 3 | 1156 | 0.88 | 0.89 | 159 | empty |
| 4 | 992 | 0.88 | 0.89 | 133 | empty |
| 5 | 1022 | 0.88 | 0.89 | 140 | empty |
Interfaces
12 interfaces between chains.
- A–B · 2820 Ų buried · 14 hydrogen bonds · protein-protein
- G–H · 2813 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 2812 Ų buried · 14 hydrogen bonds · protein-protein
- A–L · 2807 Ų buried · 13 hydrogen bonds · protein-protein
- J–K · 2806 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 6OD7 · Herpes simplex virus type 1 (HSV-1) pUL6 portal protein, dodecameric complex · 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 H9E912
- Elsewhere: RCSB PDB 6OD7 · PDBe 6OD7 · UniProt H9E912
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