Research workbench
Crystal structure of the karyopherin KAP60P bound to the sumo protease ULP1P (150-340)
Analyse Crystal structure of the karyopherin KAP60P bound to the sumo protease ULP1P… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5H2W
- Type
- protein
- Length
- 866 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Importin subunit alpha; Ubiquitin-like-specific protease 1
- EC
- 3.4.22.68
- UniProt
- Q02821, Q02724
- Pockets
- 4 · best druggability 0.55
Structure
x-ray diffraction · 4 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Importin subunit alpha | protein | 416 | 75% helix, 0% strand | Q02821 |
| B | Ubiquitin-like-specific protease 1 (EC 3.4.22.68) | protein | 17 | 0% helix, 0% strand | Q02724 |
| C | Importin subunit alpha | protein | 414 | 75% helix, 0% strand | Q02821 |
| D | Ubiquitin-like-specific protease 1 (EC 3.4.22.68) | protein | 19 | 0% helix, 0% strand | Q02724 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 163 | 0.55 | 0.81 | 25 | empty |
| 2 | 188 | 0.51 | 0.78 | 27 | empty |
| 3 | 182 | 0.44 | 0.74 | 30 | empty |
| 4 | 130 | 0.35 | 0.72 | 15 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1356 Ų buried · 36 hydrogen bonds · protein-protein
- A–B · 1295 Ų buried · 32 hydrogen bonds · protein-protein
- A–C · 126 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5H2W · Crystal structure of the karyopherin Kap60p bound to the SUMO protease Ulp1p (150-340) · the same entry in another collection · chain D against D, TM-score 1.00
- Q02821 · AlphaFold monomer V2.0 prediction for importin subunit alpha (Q02821) · a predicted model of the same protein · chain C against A, TM-score 0.99
- Q02724 · AlphaFold monomer V2.0 prediction for ubiquitin-like-specific protease 1 (Q02724) · a predicted model of the same protein · chain B against A, TM-score 0.25
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 Q02821
- Every structure of UniProt Q02724
- Elsewhere: RCSB PDB 5H2W · PDBe 5H2W · UniProt Q02821 · UniProt Q02724
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