Research workbench
Crystal structure of sucrose 6F-phosphate phosphorylase from ilumatobacter coccineus
Analyse Crystal structure of sucrose 6F-phosphate phosphorylase from ilumatobacter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6S9U
- Type
- protein
- Length
- 520 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative sucrose phosphorylase
- EC
- 2.4.1.7
- UniProt
- M5A566
- Ligands
- PO4
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative sucrose phosphorylase (EC 2.4.1.7) | protein | 520 | 37% helix, 26% strand | M5A566 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · chains A
- B3P · 2-[3-(2-hydroxy-1,1-dihydroxymethyl-ethylamino)-propylamino]-2-hydroxymethyl-propane-1,3-diol · additive · 2 copies · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 250 | 0.66 | 0.83 | 36 | PO4, TRS |
| 2 | 165 | 0.49 | 0.77 | 21 | B3P |
| 3 | 118 | 0.44 | 0.77 | 19 | empty |
| 4 | 61 | 0.34 | 0.77 | 15 | empty |
Compared structures
- 6S9U · Crystal structure of sucrose 6F-phosphate phosphorylase from Ilumatobacter coccineus · 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 M5A566
- Elsewhere: RCSB PDB 6S9U · PDBe 6S9U · UniProt M5A566
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.