MolNFT v1 · #139190 · protein
Crystal structure of nucleosome assembly protein S (pfnaps) from plasmodium falciparum
5X7V: “Crystal structure of nucleosome assembly protein S (pfnaps) from plasmodium falciparum”. X-ray diffraction, 7 pockets (best druggability 0.55). MolNFT v1 #139190 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5X7V
- Type
- protein
- Length
- 1,023 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleosome assembly protein
- UniProt
- Q9Y010
- Pockets
- 7 · best druggability 0.55
Structure
x-ray diffraction · 6 distinct chains · 48% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nucleosome assembly protein | protein | 177 | 46% helix, 17% strand | Q9Y010 |
| B | Nucleosome assembly protein | protein | 160 | 50% helix, 18% strand | Q9Y010 |
| C | Nucleosome assembly protein | protein | 179 | 45% helix, 16% strand | Q9Y010 |
| D | Nucleosome assembly protein | protein | 172 | 50% helix, 20% strand | Q9Y010 |
| E | Nucleosome assembly protein | protein | 167 | 50% helix, 19% strand | Q9Y010 |
| F | Nucleosome assembly protein | protein | 168 | 48% helix, 20% strand | Q9Y010 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 302 | 0.55 | 0.75 | 29 | empty |
| 2 | 241 | 0.54 | 0.77 | 30 | empty |
| 3 | 224 | 0.50 | 0.76 | 24 | empty |
| 4 | 217 | 0.50 | 0.76 | 23 | empty |
| 5 | 136 | 0.44 | 0.77 | 23 | empty |
Interfaces
7 interfaces between chains.
- C–D · 1777 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1764 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 1742 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 548 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 171 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5X7V · Crystal structure of Nucleosome assembly protein S (PfNapS) from Plasmodium falciparum · 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 Q9Y010
- Elsewhere: RCSB PDB 5X7V · PDBe 5X7V · UniProt Q9Y010
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