Research workbench
The 1.80 ångström crystal structure of galactose oxidase variant with genetically incorporated F2-TYR272
Analyse The 1.80 ångström crystal structure of galactose oxidase variant with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XLS
- Type
- protein
- Length
- 639 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galactose oxidase
- EC
- 1.1.3.9
- UniProt
- P0CS93
- Ligands
- CU, CA
- Pockets
- 3 · best druggability 0.51
Structure
x-ray diffraction · 1 distinct chain · 4% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Galactose oxidase (EC 1.1.3.9) | protein | 639 | 4% helix, 42% strand | P0CS93 |
Ligands and binding sites
- CU · Copper (II) ion · metal · chains A
- CA · Calcium ion · metal · chains A
- ACT · Acetate ion · additive · 4 copies · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 241 | 0.51 | 0.75 | 33 | empty |
| 2 | 175 | 0.46 | 0.75 | 32 | ACT, GOL |
| 3 | 57 | 0.32 | 0.76 | 20 | empty |
Modifications
Observed in the structure: 2 disulfide, 1 modified (disulfide, nonstandard).
Compared structures
- 6XLS · The 1.80 Angstrom crystal structure of galactose oxidase variant with genetically… · the same entry in another collection · chain A against A, TM-score 1.00
- P0CS93 · AlphaFold monomer V2.0 prediction for galactose oxidase (P0CS93) · a predicted model of the same protein · 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 P0CS93
- Elsewhere: RCSB PDB 6XLS · PDBe 6XLS · UniProt P0CS93
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