MolNFT v1 · #137885 · protein
Crystal structure of C-terminal domain of ebola (reston) nucleoprotein in complex with Fab fragment
5W2B · Fab heavy chain: “Crystal structure of C-terminal domain of ebola (reston) nucleoprotein in complex with Fab fragment”. X-ray diffraction, 5 pockets (best druggability 0.74). MolNFT v1 #137885 on GenesisL1: 3D structure, binding…
- PDB
- 5W2B
- Type
- protein
- Length
- 533 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab heavy chain; Fab light chain; Nucleoprotein
- UniProt
- Q8JPY1
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 14% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Fab heavy chain | protein | 226 | 7% helix, 50% strand | — |
| L | Fab light chain | protein | 210 | 6% helix, 51% strand | — |
| A | Nucleoprotein | protein | 97 | 52% helix, 16% strand | Q8JPY1 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 137 | 0.74 | 0.93 | 32 | empty |
| 2 | 424 | 0.58 | 0.74 | 50 | empty |
| 3 | 121 | 0.43 | 0.76 | 28 | empty |
| 4 | 81 | 0.33 | 0.74 | 17 | empty |
| 5 | 56 | 0.28 | 0.74 | 18 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1908 Ų buried · 17 hydrogen bonds · protein-protein
- H–A · 850 Ų buried · 8 hydrogen bonds · protein-protein
- L–A · 108 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5W2B · Crystal structure of C-terminal domain of Ebola (Reston) nucleoprotein in complex with… · the same entry in another collection · chain H against H, 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 Q8JPY1
- Elsewhere: RCSB PDB 5W2B · PDBe 5W2B · UniProt Q8JPY1
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