Research workbench
Crystal structure of the ubiquitin like domain of PLXNC1
Analyse Crystal structure of the ubiquitin like domain of PLXNC1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KUZ
- Type
- protein
- Length
- 219 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Plexin-C1
- UniProt
- O60486
- Ligands
- UNX
- Pockets
- 4 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 20% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Plexin-C1 | protein | 110 | 20% helix, 34% strand | O60486 |
| B | Plexin-C1 | protein | 109 | 20% helix, 34% strand | O60486 |
Ligands and binding sites
- UNX · Unknown atom or ion · ion · 12 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 51 | 0.32 | 0.77 | 13 | empty |
| 2 | 64 | 0.31 | 0.75 | 20 | empty |
| 3 | 64 | 0.30 | 0.75 | 15 | UNX |
| 4 | 51 | 0.27 | 0.73 | 16 | UNX |
Interfaces
1 interface between chains.
- A–B · 509 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
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 O60486
- Elsewhere: RCSB PDB 3KUZ · PDBe 3KUZ · UniProt O60486
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.