MolNFT v1 · #162518 · protein
Cryo-EM structure of the anti-feeding prophage (afp) helical sheath- tube complex in extended state
6RBN · AFP1: “Cryo-EM structure of the anti-feeding prophage (afp) helical sheath- tube complex in extended state”. Electron microscopy, 10 pockets (best druggability 0.75). MolNFT v1 #162518 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6RBN
- Type
- protein
- Length
- 1,004 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- AFP1; AFP2; AFP3
- UniProt
- Q6HAD8, Q6HAD7, Q6HAD6
- Pockets
- 10 · best druggability 0.75
Structure
electron microscopy · 3 distinct chains · 26% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | AFP1 | protein | 148 | 5% helix, 44% strand | Q6HAD8 |
| C | AFP2 | protein | 350 | 31% helix, 13% strand | Q6HAD7 |
| D | AFP3 | protein | 358 | 29% helix, 16% strand | Q6HAD6 |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1114 | 0.75 | 0.78 | 105 | empty |
| 2 | 543 | 0.70 | 0.79 | 55 | empty |
| 3 | 333 | 0.56 | 0.75 | 35 | empty |
| 4 | 152 | 0.48 | 0.77 | 25 | empty |
| 5 | 195 | 0.46 | 0.75 | 32 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1711 Ų buried · 23 hydrogen bonds · protein-protein
- B–D · 644 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 560 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 287 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 131 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6RBN · Cryo-EM structure of the anti-feeding prophage (AFP) helical sheath-tube complex in… · 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 Q6HAD8
- Every structure of UniProt Q6HAD7
- Every structure of UniProt Q6HAD6
- Elsewhere: RCSB PDB 6RBN · PDBe 6RBN · UniProt Q6HAD8 · UniProt Q6HAD7 · UniProt Q6HAD6
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