MolNFT v1 · #189594 · protein
Cryo-EM structures of listeria monocytogenes man-pts
7VLX · MANNOSE/FRUCTOSE/SORBOSE family pts transporter subunit iic: “Cryo-EM structures of listeria monocytogenes man-pts”. Electron microscopy, 1 ligand (MAN), 20 pockets (best druggability 0.88). MolNFT v1 #189594 on GenesisL1: 3D…
- PDB
- 7VLX
- Type
- protein
- Length
- 1,635 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MANNOSE/FRUCTOSE/SORBOSE family pts transporter subunit iic; Pts mannose family…
- UniProt
- S5LAD9, A0A1E8EBU8
- Ligands
- MAN
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 2 distinct chains · 64% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| Y, A, C | MANNOSE/FRUCTOSE/SORBOSE family pts transporter subunit iic | protein | 247 | 68% helix, 0% strand | S5LAD9 |
| Z, B, D | Pts mannose family transporter subunit iid | protein | 298 | 60% helix, 3% strand | A0A1E8EBU8 |
Ligands and binding sites
- MAN · alpha-D-mannopyranose · sugar · 3 copies · chains Y, Z, A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 436 | 0.88 | 0.94 | 40 | empty |
| 2 | 598 | 0.70 | 0.78 | 64 | empty |
| 3 | 353 | 0.64 | 0.79 | 38 | empty |
| 4 | 285 | 0.63 | 0.80 | 28 | empty |
| 5 | 376 | 0.60 | 0.76 | 53 | empty |
Interfaces
12 interfaces between chains.
- C–D · 4805 Ų buried · 31 hydrogen bonds · protein-protein
- Y–Z · 4798 Ų buried · 29 hydrogen bonds · protein-protein
- A–B · 4751 Ų buried · 32 hydrogen bonds · protein-protein
- Y–A · 660 Ų buried · 4 hydrogen bonds · protein-protein
- Y–C · 653 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7VLX · Cryo-EM structures of Listeria monocytogenes man-PTS · the same entry in another collection · chain Y against Y, 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 S5LAD9
- Every structure of UniProt A0A1E8EBU8
- Elsewhere: RCSB PDB 7VLX · PDBe 7VLX · UniProt S5LAD9 · UniProt A0A1E8EBU8
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.