Research workbench
Crystal structure of VAO-type flavoprotein MtVAO615 at pH 7.5 from Myceliophthora thermophila C1
Analyse Crystal structure of VAO-type flavoprotein MtVAO615 at pH 7.5 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6F72
- Type
- protein
- Length
- 548 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Myceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799)
- Molecule
- MtVAO615
- UniProt
- G2QDQ9
- Ligands
- FAD, NAG, BMA
- Pockets
- 2 · best druggability 0.83
Structure
x-ray diffraction · resolution 2 · 1 distinct chain · 35% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MtVAO615 | protein | 548 | 35% helix, 22% strand | G2QDQ9 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 9 copies · chains A
- BMA · beta-D-mannopyranose · sugar · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 521 | 0.83 | 0.89 | 63 | FAD |
| 2 | 205 | 0.55 | 0.79 | 28 | empty |
Modifications
Observed in the structure: 6 glycan, 4 disulfide, 2 cofactor (N-glycosylation, disulfide, flavinylation).
Compared structures
- 6F72 · Crystal structure of vao-type flavoprotein MTVAO615 at pH 7.5 from myceliophthora… · the same entry in another collection · chain A against A, TM-score 1.00
- G2QDQ9 · AlphaFold monomer V2.0 prediction for vao-type flavoprotein oxidase VAO615 (G2QDQ9) · 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 G2QDQ9
- Elsewhere: RCSB PDB 6F72 · PDBe 6F72 · UniProt G2QDQ9
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