MolNFT v1 · #63185 · protein
Mannosyl-3-phosphoglycerate synthase from rubrobacter xylanophilus
3F1Y: “Mannosyl-3-phosphoglycerate synthase from rubrobacter xylanophilus”. X-ray diffraction, 2 ligands (MG, CL), 4 pockets (best druggability 0.74). MolNFT v1 #63185 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3F1Y
- Type
- protein
- Length
- 636 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mannosyl-3-phosphoglycerate synthase
- EC
- 2.4.1.217
- UniProt
- B7SY86
- Ligands
- MG, CL
- Pockets
- 4 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) | protein | 318 | 42% helix, 20% strand | B7SY86 |
| C | Mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) | protein | 318 | 43% helix, 20% strand | B7SY86 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 626 | 0.74 | 0.81 | 61 | empty |
| 2 | 647 | 0.73 | 0.80 | 60 | empty |
| 3 | 84 | 0.56 | 0.86 | 20 | empty |
| 4 | 62 | 0.40 | 0.80 | 17 | MG |
Interfaces
1 interface between chains.
- A–C · 3158 Ų buried · 37 hydrogen bonds · protein-protein
Compared structures
- 3F1Y · Mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus · 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 B7SY86
- Elsewhere: RCSB PDB 3F1Y · PDBe 3F1Y · UniProt B7SY86
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