Research workbench
Dehydrogenase domain of myriococcum thermophilum cellobiose dehydrogenase, mtdh
Analyse Dehydrogenase domain of myriococcum thermophilum cellobiose dehydrogenase, mtdh in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4QI4
- Type
- protein
- Length
- 585 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cellobiose dehydrogenase
- UniProt
- A9XK88
- Ligands
- FAD, NAG, CD
- Pockets
- 3 · best druggability 0.86
Structure
x-ray diffraction · 1 distinct chain · 26% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cellobiose dehydrogenase | protein | 585 | 26% helix, 22% strand | A9XK88 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 5 copies · chains A
- CD · Cadmium ion · metal · 9 copies · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 819 | 0.86 | 0.88 | 85 | FAD, CD |
| 2 | 166 | 0.61 | 0.84 | 26 | empty |
| 3 | 57 | 0.33 | 0.77 | 17 | empty |
Modifications
Observed in the structure: 3 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 4QI4 · Dehydrogenase domain of Myriococcum thermophilum cellobiose dehydrogenase, MtDH · 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 A9XK88
- Elsewhere: RCSB PDB 4QI4 · PDBe 4QI4 · UniProt A9XK88
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