MolNFT v1 · #62087 · protein
Crystal structure of putative beta-phosphoglucomutase from streptococcus thermophilus
3E58: “Crystal structure of putative beta-phosphoglucomutase from streptococcus thermophilus”. X-ray diffraction, 1 ligand (SO4), 5 pockets (best druggability 0.60). MolNFT v1 #62087 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 3E58
- Type
- protein
- Length
- 419 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative beta-phosphoglucomutase
- UniProt
- Q5M5S4
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative beta-phosphoglucomutase | protein | 211 | 50% helix, 15% strand | Q5M5S4 |
| B | Putative beta-phosphoglucomutase | protein | 208 | 50% helix, 15% strand | Q5M5S4 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 407 | 0.60 | 0.76 | 55 | SO4, GOL |
| 2 | 70 | 0.60 | 0.90 | 28 | SO4 |
| 3 | 128 | 0.47 | 0.78 | 26 | GOL |
| 4 | 109 | 0.42 | 0.77 | 17 | empty |
| 5 | 80 | 0.38 | 0.78 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 777 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 3E58 · Crystal structure of putative beta-phosphoglucomutase from Streptococcus thermophilus · the same entry in another collection · chain A against A, 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 Q5M5S4
- Elsewhere: RCSB PDB 3E58 · PDBe 3E58 · UniProt Q5M5S4
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