MolNFT v1 · #165228 · protein
Neck of empty gta particle computed with C6 symmetry
6TOA · Adaptor protein RCC01688: “Neck of empty gta particle computed with C6 symmetry”. Electron microscopy, 17 pockets (best druggability 0.87). MolNFT v1 #165228 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6TOA
- Type
- protein
- Length
- 1,501 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adaptor protein RCC01688; Portal protein RCC01684; Tail terminator protein RCC01690…
- UniProt
- D5ATZ4, D5ATZ0, D5ATZ6, D5ATZ5, D5ATZ7
- Pockets
- 17 · best druggability 0.87
Structure
electron microscopy · 7 distinct chains · 28% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Adaptor protein RCC01688 | protein | 192 | 24% helix, 17% strand | D5ATZ4 |
| A | Portal protein RCC01684 | protein | 370 | 42% helix, 12% strand | D5ATZ0 |
| B | Portal protein RCC01684 | protein | 366 | 40% helix, 11% strand | D5ATZ0 |
| D | Adaptor protein RCC01688 | protein | 195 | 25% helix, 15% strand | D5ATZ4 |
| F | Tail terminator protein RCC01690 | protein | 134 | 16% helix, 24% strand | D5ATZ6 |
| E | Stopper protein RCC01689 | protein | 110 | 0% helix, 46% strand | D5ATZ5 |
| G | Tail tube protein RCC01691 | protein | 134 | 7% helix, 38% strand | D5ATZ7 |
Pockets
17 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1043 | 0.87 | 0.88 | 105 | empty |
| 2 | 598 | 0.78 | 0.84 | 73 | empty |
| 3 | 516 | 0.75 | 0.83 | 53 | empty |
| 4 | 345 | 0.62 | 0.78 | 43 | empty |
| 5 | 328 | 0.61 | 0.78 | 38 | empty |
Interfaces
10 interfaces between chains.
- A–B · 4280 Ų buried · 31 hydrogen bonds · protein-protein
- C–D · 1358 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 1130 Ų buried · 16 hydrogen bonds · protein-protein
- D–E · 732 Ų buried · 9 hydrogen bonds · protein-protein
- C–A · 728 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 6TOA · Neck of empty GTA particle computed with C6 symmetry · the same entry in another collection · chain C against C, 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 D5ATZ4
- Every structure of UniProt D5ATZ0
- Every structure of UniProt D5ATZ6
- Every structure of UniProt D5ATZ5
- Every structure of UniProt D5ATZ7
- Elsewhere: RCSB PDB 6TOA · PDBe 6TOA · UniProt D5ATZ4 · UniProt D5ATZ0 · UniProt D5ATZ6 · UniProt D5ATZ5 · UniProt D5ATZ7
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