MolNFT v1 · #108364 · protein
Crystal structure of prgk 19-92
4W4M · Lipoprotein prgk: “Crystal structure of prgk 19-92”. X-ray diffraction, 6 pockets (best druggability 0.75). MolNFT v1 #108364 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4W4M
- Type
- protein
- Length
- 872 residues
- Chains
- 14
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lipoprotein prgk
- UniProt
- P41786
- Pockets
- 6 · best druggability 0.75
Structure
x-ray diffraction · 4 distinct chains · 45% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D, F, G | Lipoprotein prgk | protein | 61 | 46% helix, 30% strand | P41786 |
| C, E, I, M | Lipoprotein prgk | protein | 62 | 45% helix, 29% strand | P41786 |
| H, J, K, L | Lipoprotein prgk | protein | 64 | 44% helix, 28% strand | P41786 |
| N | Lipoprotein prgk | protein | 63 | 44% helix, 29% strand | P41786 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 887 | 0.75 | 0.79 | 69 | empty |
| 2 | 512 | 0.63 | 0.76 | 51 | empty |
| 3 | 64 | 0.37 | 0.78 | 11 | empty |
| 4 | 99 | 0.33 | 0.73 | 18 | empty |
| 5 | 98 | 0.33 | 0.73 | 20 | empty |
Interfaces
19 interfaces between chains.
- K–L · 645 Ų buried · 13 hydrogen bonds · protein-protein
- J–K · 608 Ų buried · 11 hydrogen bonds · protein-protein
- J–N · 607 Ų buried · 12 hydrogen bonds · protein-protein
- F–G · 600 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 590 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 4W4M · Crystal structure of PrgK 19-92 · the same entry in another collection · chain N against N, 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 P41786
- Elsewhere: RCSB PDB 4W4M · PDBe 4W4M · UniProt P41786
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.