MolNFT v1 · #70903 · protein
Crystal structure of putative uncharacterized protein from jonesia denitrificans
3LYD: “Crystal structure of putative uncharacterized protein from jonesia denitrificans”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.38). MolNFT v1 #70903 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3LYD
- Type
- protein
- Length
- 318 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- C7QYG7
- Ligands
- MG
- Pockets
- 2 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 18% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 158 | 18% helix, 47% strand | C7QYG7 |
| B | Uncharacterized protein | protein | 160 | 18% helix, 47% strand | C7QYG7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 71 | 0.38 | 0.78 | 20 | empty |
| 2 | 77 | 0.34 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1621 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (engineered).
Compared structures
- 3LYD · Crystal structure of Putative uncharacterized protein from Jonesia denitrificans · 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 C7QYG7
- Elsewhere: RCSB PDB 3LYD · PDBe 3LYD · UniProt C7QYG7
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