MolNFT v1 · #135791 · protein
Crystal structure of the intermembrane space region of the plastid division protein PARC6
5U9L · Paralog of accumulation and replication of chloroplasts 6…: “Crystal structure of the intermembrane space region of the plastid division protein PARC6”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.46). MolNFT v1…
- PDB
- 5U9L
- Type
- protein
- Length
- 303 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Paralog of accumulation and replication of chloroplasts 6 (PARC6)
- UniProt
- Q8VY16
- Ligands
- MG
- Pockets
- 2 · best druggability 0.46
Structure
x-ray diffraction · 2 distinct chains · 32% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Paralog of accumulation and replication of chloroplasts 6 (PARC6) | protein | 152 | 32% helix, 43% strand | Q8VY16 |
| B | Paralog of accumulation and replication of chloroplasts 6 (PARC6) | protein | 151 | 32% helix, 45% strand | Q8VY16 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
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 | 88 | 0.46 | 0.81 | 29 | empty |
| 2 | 62 | 0.29 | 0.74 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 992 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5U9L · Crystal structure of the intermembrane space region of the plastid division protein PARC6 · the same entry in another collection · chain A against A, TM-score 1.00
- Q8VY16 · AlphaFold monomer V2.0 prediction for plastid division protein CDP1, chloroplastic… · a predicted model of the same protein · chain B against A, TM-score 0.87
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 Q8VY16
- Elsewhere: RCSB PDB 5U9L · PDBe 5U9L · UniProt Q8VY16
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.