MolNFT v1 · #125742 · protein
Bacteriophage PHI812K1-420 tail sheath and tail tube protein in native tail
5LI2 · Tail sheath protein: “Bacteriophage PHI812K1-420 tail sheath and tail tube protein in native tail”. Electron microscopy, 20 pockets (best druggability 0.76). MolNFT v1 #125742 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5LI2
- Type
- protein
- Length
- 3,162 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tail sheath protein; Phage-like element pbsx protein xkdm
- UniProt
- A0A0U1WZ79, P54332
- Pockets
- 20 · best druggability 0.76
Structure
electron microscopy · 2 distinct chains · 25% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Tail sheath protein | protein | 427 | 28% helix, 24% strand | A0A0U1WZ79 |
| G, H, I, J, K, L | Phage-like element pbsx protein xkdm | protein | 100 | 16% helix, 41% strand | P54332 |
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 | 82 | 0.76 | 0.98 | 24 | empty |
| 2 | 546 | 0.75 | 0.82 | 79 | empty |
| 3 | 79 | 0.75 | 0.98 | 25 | empty |
| 4 | 81 | 0.75 | 0.97 | 26 | empty |
| 5 | 83 | 0.74 | 0.97 | 27 | empty |
Interfaces
18 interfaces between chains.
- K–L · 978 Ų buried · 59 hydrogen bonds · protein-protein
- G–L · 976 Ų buried · 59 hydrogen bonds · protein-protein
- I–J · 973 Ų buried · 59 hydrogen bonds · protein-protein
- G–H · 972 Ų buried · 59 hydrogen bonds · protein-protein
- J–K · 971 Ų buried · 59 hydrogen bonds · protein-protein
Compared structures
- 5LI2 · bacteriophage phi812K1-420 tail sheath and tail tube protein in native tail · the same entry in another collection · chain L against L, 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 A0A0U1WZ79
- Every structure of UniProt P54332
- Elsewhere: RCSB PDB 5LI2 · PDBe 5LI2 · UniProt A0A0U1WZ79 · UniProt P54332
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