Research workbench
Cryo-EM structure of an extracellular contractile injection system, pvc sheath-tube complex in extended state
Analyse Cryo-EM structure of an extracellular contractile injection system, pvc… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6J0B
- Type
- protein
- Length
- 6,000 residues
- Chains
- 24
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PVC2; PVC1
- UniProt
- B6VNP3, B6VNP4
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 2 distinct chains · 23% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | PVC2 | protein | 352 | 30% helix, 18% strand | B6VNP3 |
| a, b, c, d, e, f, g, h, i, j, k, l | PVC1 | protein | 148 | 8% helix, 52% strand | B6VNP4 |
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 | 999 | 0.85 | 0.86 | 106 | empty |
| 2 | 1016 | 0.85 | 0.86 | 110 | empty |
| 3 | 1144 | 0.85 | 0.86 | 129 | empty |
| 4 | 730 | 0.85 | 0.88 | 98 | empty |
| 5 | 953 | 0.85 | 0.86 | 106 | empty |
Interfaces
102 interfaces between chains.
- a–f · 1657 Ų buried · 18 hydrogen bonds · protein-protein
- g–l · 1649 Ų buried · 17 hydrogen bonds · protein-protein
- E–K · 1649 Ų buried · 21 hydrogen bonds · protein-protein
- F–L · 1647 Ų buried · 22 hydrogen bonds · protein-protein
- B–H · 1646 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 6J0B · Cryo-EM Structure of an Extracellular Contractile Injection System, PVC sheath-tube… · 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 B6VNP3
- Every structure of UniProt B6VNP4
- Elsewhere: RCSB PDB 6J0B · PDBe 6J0B · UniProt B6VNP3 · UniProt B6VNP4
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