Research workbench
Structure of the lrr and NTF2-like domains of NXF1 complexed with NXT1
Analyse Structure of the lrr and NTF2-like domains of NXF1 complexed with NXT1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WYK
- Type
- protein
- Length
- 966 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear RNA export factor 1; NTF2-related export protein 1
- UniProt
- Q9UBU9, Q9UKK6
- Pockets
- 14 · best druggability 0.60
Structure
x-ray diffraction · 3 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclear RNA export factor 1 | protein | 344 | 35% helix, 22% strand | Q9UBU9 |
| B, D | NTF2-related export protein 1 | protein | 138 | 33% helix, 45% strand | Q9UKK6 |
| C | Nuclear RNA export factor 1 | protein | 346 | 35% helix, 22% strand | Q9UBU9 |
Pockets
14 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 94 | 0.60 | 0.88 | 21 | empty |
| 2 | 93 | 0.57 | 0.86 | 22 | empty |
| 3 | 173 | 0.53 | 0.79 | 35 | empty |
| 4 | 101 | 0.53 | 0.83 | 21 | empty |
| 5 | 128 | 0.50 | 0.80 | 27 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2334 Ų buried · 30 hydrogen bonds · protein-protein
- C–D · 2330 Ų buried · 32 hydrogen bonds · protein-protein
- A–D · 1116 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 1065 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 407 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4WYK · Structure of the LRR and NTF2-like domains of NXF1 complexed with NXT1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UBU9 · AlphaFold monomer V2.0 prediction for nuclear RNA export factor 1 (Q9UBU9) · a predicted model of the same protein · chain C against A, TM-score 0.95
- Q9UKK6 · AlphaFold monomer V2.0 prediction for NTF2-related export protein 1 (Q9UKK6) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 Q9UBU9
- Every structure of UniProt Q9UKK6
- Elsewhere: RCSB PDB 4WYK · PDBe 4WYK · UniProt Q9UBU9 · UniProt Q9UKK6
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