MolNFT v1 · #185837 · protein
Structure of a kluyveromyces lactis protein involved in RNA decay
7QHY · Nonsense-mediated decay protein 4,NONSENSE-mediated decay…: “Structure of a kluyveromyces lactis protein involved in RNA decay”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.70). MolNFT v1 #185837 on GenesisL1…
- PDB
- 7QHY
- Type
- protein
- Length
- 362 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nonsense-mediated decay protein 4,NONSENSE-mediated decay protein 4,NONSENSE mediated…
- UniProt
- Q6CVZ8
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 53% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nonsense-mediated decay protein 4,NONSENSE-mediated decay protein 4,NONSENSE mediated mRNA decay protein 4 (NMD4) | protein | 190 | 51% helix, 14% strand | Q6CVZ8 |
| B | Nonsense-mediated decay protein 4,NONSENSE-mediated decay protein 4,NONSENSE mediated mRNA decay protein 4 (NMD4) | protein | 172 | 55% helix, 13% strand | Q6CVZ8 |
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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1085 | 0.70 | 0.74 | 76 | GOL |
| 2 | 52 | 0.29 | 0.75 | 10 | GOL |
Interfaces
1 interface between chains.
- A–B · 450 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7QHY · Structure of a Kluyveromyces lactis protein involved in RNA decay · the same entry in another collection · chain A against A, TM-score 1.00
- Q6CVZ8 · AlphaFold monomer V2.0 prediction for nonsense-mediated decay protein 4 (Q6CVZ8) · a predicted model of the same protein · chain B against A, TM-score 0.94
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 Q6CVZ8
- Elsewhere: RCSB PDB 7QHY · PDBe 7QHY · UniProt Q6CVZ8
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