Research workbench
Vesiculoviral matrix (M) protein occupies nucleic acid binding site at nucleoporin pair RAE1-NUP98
Analyse Vesiculoviral matrix (M) protein occupies nucleic acid binding site at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4OWR
- Type
- protein
- Length
- 561 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MRNA export factor; Nuclear pore complex protein NUP98-NUP96; Matrix protein
- UniProt
- P78406, P52948, Q8B0H7
- Pockets
- 7 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 11% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MRNA export factor | protein | 331 | 3% helix, 52% strand | P78406 |
| B | Nuclear pore complex protein NUP98-NUP96 | protein | 54 | 24% helix, 24% strand | P52948 |
| C | Matrix protein | protein | 176 | 22% helix, 36% strand | Q8B0H7 |
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 | 944 | 0.81 | 0.83 | 73 | empty |
| 2 | 321 | 0.60 | 0.78 | 38 | empty |
| 3 | 163 | 0.52 | 0.79 | 19 | empty |
| 4 | 179 | 0.50 | 0.78 | 36 | empty |
| 5 | 97 | 0.41 | 0.77 | 25 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1510 Ų buried · 28 hydrogen bonds · protein-protein
- A–C · 1100 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 148 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4OWR · Vesiculoviral matrix (M) protein occupies nucleic acid binding site at nucleoporin pair… · the same entry in another collection · chain A against A, TM-score 1.00
- P78406 · AlphaFold monomer V2.0 prediction for mRNA export factor (P78406) · a predicted model of the same protein · chain A against A, TM-score 1.00
- P52948 · AlphaFold monomer V2.0 prediction for nuclear pore complex protein NUP98-NUP96 (P52948) · 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 P78406
- Every structure of UniProt P52948
- Every structure of UniProt Q8B0H7
- Elsewhere: RCSB PDB 4OWR · PDBe 4OWR · UniProt P78406 · UniProt P52948 · UniProt Q8B0H7
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