Research workbench
Crystal structure of the N-terminal domain of NUP88 in complex with NUP98 C-terminal autoproteolytic domain
Analyse Crystal structure of the N-terminal domain of NUP88 in complex with NUP98… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MNI
- Type
- protein
- Length
- 1,121 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear pore complex protein NUP88; Nuclear pore complex protein NUP98
- EC
- 3.4.21.-
- UniProt
- Q99567
- Pockets
- 17 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 13% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclear pore complex protein NUP88 | protein | 409 | 11% helix, 42% strand | Q99567 |
| B, D | Nuclear pore complex protein NUP98 (EC 3.4.21.-) | protein | 150 | 20% helix, 35% strand | — |
| C | Nuclear pore complex protein NUP88 | protein | 412 | 11% helix, 42% strand | Q99567 |
Pockets
17 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 963 | 0.79 | 0.80 | 88 | empty |
| 2 | 884 | 0.78 | 0.81 | 68 | empty |
| 3 | 147 | 0.70 | 0.90 | 23 | empty |
| 4 | 102 | 0.67 | 0.91 | 23 | empty |
| 5 | 624 | 0.66 | 0.76 | 64 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1291 Ų buried · 31 hydrogen bonds · protein-protein
- A–B · 1276 Ų buried · 28 hydrogen bonds · protein-protein
- A–D · 293 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 288 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 26 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7MNI · Crystal structure of the N-terminal domain of NUP88 in complex with NUP98 C-terminal… · the same entry in another collection · chain A against A, TM-score 1.00
- Q99567 · AlphaFold monomer V2.0 prediction for nuclear pore complex protein NUP88 (Q99567) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 Q99567
- Elsewhere: RCSB PDB 7MNI · PDBe 7MNI · UniProt Q99567
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