MolNFT v1 · #101364 · protein
Crystal structure of listeria monocytogenes hfq F43W
4NOY · Protein hfq: “Crystal structure of listeria monocytogenes hfq F43W”. X-ray diffraction, 5 pockets (best druggability 0.46). MolNFT v1 #101364 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4NOY
- Type
- protein
- Length
- 433 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein hfq
- UniProt
- B8DG33
- Pockets
- 5 · best druggability 0.46
Structure
x-ray diffraction · 6 distinct chains · 21% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | Protein hfq | protein | 69 | 23% helix, 46% strand | B8DG33 |
| A | Protein hfq | protein | 73 | 22% helix, 44% strand | B8DG33 |
| B | Protein hfq | protein | 71 | 21% helix, 45% strand | B8DG33 |
| C | Protein hfq | protein | 73 | 19% helix, 45% strand | B8DG33 |
| E | Protein hfq | protein | 72 | 22% helix, 44% strand | B8DG33 |
| F | Protein hfq | protein | 75 | 20% helix, 45% strand | B8DG33 |
Ligands and binding sites
- PGO · S-1,2-propanediol · additive · 8 copies · chains D, A, B, C, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 243 | 0.46 | 0.73 | 28 | empty |
| 2 | 190 | 0.44 | 0.74 | 24 | empty |
| 3 | 128 | 0.43 | 0.76 | 16 | PGO |
| 4 | 106 | 0.43 | 0.77 | 16 | PGO |
| 5 | 104 | 0.42 | 0.78 | 26 | empty |
Interfaces
7 interfaces between chains.
- E–F · 881 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 874 Ų buried · 17 hydrogen bonds · protein-protein
- C–F · 866 Ų buried · 18 hydrogen bonds · protein-protein
- D–A · 802 Ų buried · 17 hydrogen bonds · protein-protein
- B–F · 319 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4NOY · Crystal structure of Listeria monocytogenes Hfq F43W · the same entry in another collection · chain F against F, 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 B8DG33
- Elsewhere: RCSB PDB 4NOY · PDBe 4NOY · UniProt B8DG33
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