Research workbench
Crystal structure of a conserved protein of unknown function from enterococcus faecalis V583
Analyse Crystal structure of a conserved protein of unknown function from enterococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CLQ
- Type
- protein
- Length
- 1,681 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- Q82ZN9
- Pockets
- 12 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein | protein | 420 | 44% helix, 20% strand | Q82ZN9 |
| B, C | Uncharacterized protein | protein | 421 | 43% helix, 21% strand | Q82ZN9 |
| D | Uncharacterized protein | protein | 419 | 45% helix, 21% strand | Q82ZN9 |
Ligands and binding sites
- PEG · Di(hydroxyethyl)ether · additive · 4 copies · chains B, A, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.73 | 0.98 | 19 | empty |
| 2 | 57 | 0.71 | 0.98 | 28 | empty |
| 3 | 57 | 0.71 | 0.98 | 24 | empty |
| 4 | 420 | 0.64 | 0.78 | 59 | empty |
| 5 | 416 | 0.59 | 0.75 | 36 | empty |
Interfaces
4 interfaces between chains.
- C–D · 1380 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1374 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 554 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 25 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 80 modified (engineered).
Compared structures
- 3CLQ · Crystal structure of a conserved protein of unknown function from Enterococcus faecalis… · 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 Q82ZN9
- Elsewhere: RCSB PDB 3CLQ · PDBe 3CLQ · UniProt Q82ZN9
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