Research workbench
Dieckmann cyclase, ncmc
Analyse Dieckmann cyclase, ncmc in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6E6Y
- Type
- protein
- Length
- 536 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dieckmann cyclase, ncmc
- UniProt
- A0A1X9WEN9
- Ligands
- SO4
- Pockets
- 7 · best druggability 0.68
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dieckmann cyclase, ncmc | protein | 268 | 53% helix, 13% strand | A0A1X9WEN9 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 410 | 0.68 | 0.81 | 43 | empty |
| 2 | 365 | 0.68 | 0.81 | 36 | empty |
| 3 | 343 | 0.63 | 0.79 | 31 | empty |
| 4 | 94 | 0.35 | 0.74 | 15 | empty |
| 5 | 64 | 0.30 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 387 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 6E6Y · Dieckmann cyclase, NcmC · 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 A0A1X9WEN9
- Elsewhere: RCSB PDB 6E6Y · PDBe 6E6Y · UniProt A0A1X9WEN9
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