Research workbench
3D crystal structure of NA+/MELIBIOSE symporter of salmonella typhimurium
Analyse 3D crystal structure of NA+/MELIBIOSE symporter of salmonella typhimurium in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4M64
- Type
- protein
- Length
- 1,687 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Melibiose carrier protein
- UniProt
- P30878
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 4 distinct chains · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Melibiose carrier protein | protein | 448 | 67% helix, 0% strand | P30878 |
| B | Melibiose carrier protein | protein | 426 | 59% helix, 0% strand | P30878 |
| C | Melibiose carrier protein | protein | 431 | 66% helix, 0% strand | P30878 |
| D | Melibiose carrier protein | protein | 382 | 61% helix, 0% strand | P30878 |
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 | 842 | 0.85 | 0.87 | 80 | empty |
| 2 | 1170 | 0.84 | 0.84 | 94 | empty |
| 3 | 689 | 0.83 | 0.87 | 65 | empty |
| 4 | 1006 | 0.82 | 0.83 | 66 | empty |
| 5 | 352 | 0.82 | 0.90 | 44 | empty |
Interfaces
3 interfaces between chains.
- A–B · 869 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 666 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 318 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4M64 · 3D crystal structure of Na+/melibiose symporter of Salmonella typhimurium · the same entry in another collection · chain D against D, TM-score 1.00
- P30878 · AlphaFold monomer V2.0 prediction for melibiose carrier protein (P30878) · a predicted model of the same protein · chain D against A, TM-score 0.81
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 P30878
- Elsewhere: RCSB PDB 4M64 · PDBe 4M64 · UniProt P30878
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