MolNFT v1 · #164938 · protein
Neck of native gta particle computed with C6 symmetry
6TE9 · Adaptor protein RCC01688: “Neck of native gta particle computed with C6 symmetry”. Electron microscopy, 17 pockets (best druggability 0.82). MolNFT v1 #164938 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6TE9
- Type
- protein
- Length
- 1,482 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adaptor protein RCC01688; Phage portal protein, HK97 family; Tail terminator protein…
- UniProt
- D5ATZ4, D5ATZ0, D5ATZ6, D5ATZ5, D5ATZ7
- Pockets
- 17 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 26% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, D | Adaptor protein RCC01688 | protein | 194 | 27% helix, 12% strand | D5ATZ4 |
| A, B | Phage portal protein, HK97 family | protein | 360 | 43% helix, 12% strand | D5ATZ0 |
| F | Tail terminator protein RCC01690 | protein | 134 | 18% helix, 29% strand | D5ATZ6 |
| E | Stopper protein RCC01689 | protein | 110 | 0% helix, 45% strand | D5ATZ5 |
| G | Phage major tail protein, TP901-1 family | protein | 130 | 7% helix, 42% strand | D5ATZ7 |
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 690 | 0.82 | 0.86 | 55 | empty |
| 2 | 117 | 0.76 | 0.96 | 25 | empty |
| 3 | 835 | 0.75 | 0.79 | 72 | empty |
| 4 | 461 | 0.74 | 0.83 | 54 | empty |
| 5 | 57 | 0.70 | 0.97 | 23 | empty |
Interfaces
10 interfaces between chains.
- A–B · 4282 Ų buried · 34 hydrogen bonds · protein-protein
- C–D · 1405 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 1141 Ų buried · 18 hydrogen bonds · protein-protein
- B–D · 851 Ų buried · 5 hydrogen bonds · protein-protein
- C–A · 772 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6TE9 · Neck of native 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 6TE9 · PDBe 6TE9 · UniProt D5ATZ4 · UniProt D5ATZ0 · UniProt D5ATZ6 · UniProt D5ATZ5 · UniProt D5ATZ7
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