Research workbench
Cryo-EM structure of T7 bacteriophage portal protein, 12MER, open valve
Analyse Cryo-EM structure of T7 bacteriophage portal protein, 12MER, open valve in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QXM
- Type
- protein
- Length
- 4,704 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Portal protein
- UniProt
- P03728
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 1 distinct chain · 37% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | Portal protein | protein | 392 | 37% helix, 13% strand | P03728 |
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 | 971 | 0.84 | 0.85 | 127 | empty |
| 2 | 988 | 0.84 | 0.85 | 136 | empty |
| 3 | 1129 | 0.83 | 0.84 | 128 | empty |
| 4 | 993 | 0.83 | 0.84 | 111 | empty |
| 5 | 1073 | 0.83 | 0.84 | 123 | empty |
Interfaces
24 interfaces between chains.
- D–E · 3252 Ų buried · 24 hydrogen bonds · protein-protein
- J–K · 3238 Ų buried · 24 hydrogen bonds · protein-protein
- A–L · 3235 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 3234 Ų buried · 26 hydrogen bonds · protein-protein
- G–H · 3232 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 6QXM · Cryo-EM structure of T7 bacteriophage portal protein, 12mer, open valve · 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 P03728
- Elsewhere: RCSB PDB 6QXM · PDBe 6QXM · UniProt P03728
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