MolNFT v1 · #117406 · protein
Crystal structure of BACOVA_02651 with xylogluco-oligosaccharide
5E76 · Susd-like protein BACOVA_02651: “Crystal structure of BACOVA_02651 with xylogluco-oligosaccharide”. X-ray diffraction, 4 ligands (BGC, XYS, NA), 4 pockets (best druggability 0.74). MolNFT v1 #117406 on GenesisL1: 3D structure…
- PDB
- 5E76
- Type
- protein
- Length
- 492 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Susd-like protein BACOVA_02651
- UniProt
- A7LXT5
- Ligands
- BGC, XYS, NA, CL
- Pockets
- 4 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Susd-like protein BACOVA_02651 | protein | 492 | 47% helix, 9% strand | A7LXT5 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · 7 copies · chains A
- XYS · alpha-D-xylopyranose · sugar · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- CL · Chloride ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 5 copies · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 73 | 0.74 | 0.98 | 19 | empty |
| 2 | 184 | 0.53 | 0.78 | 22 | EDO |
| 3 | 81 | 0.47 | 0.82 | 19 | empty |
| 4 | 91 | 0.45 | 0.80 | 22 | empty |
Compared structures
- 5E76 · Crystal structure of Bacova_02651 with xylogluco-oligosaccharide · the same entry in another collection · chain A against A, TM-score 1.00
- A7LXT5 · AlphaFold monomer V2.0 prediction for susd-like protein BACOVA_02651 (A7LXT5) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 A7LXT5
- Elsewhere: RCSB PDB 5E76 · PDBe 5E76 · UniProt A7LXT5
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