MolNFT v1 · #120518 · protein
Crystal structure of the karyopherin KAP121P bound to the sumo protease ULP1P
5H2V · Importin subunit beta-3: “Crystal structure of the karyopherin KAP121P bound to the sumo protease ULP1P”. X-ray diffraction, 4 pockets (best druggability 0.61). MolNFT v1 #120518 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5H2V
- Type
- protein
- Length
- 1,032 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Importin subunit beta-3; Ubiquitin-like-specific protease 1
- EC
- 3.4.22.68
- UniProt
- P32337, Q02724
- Pockets
- 4 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 75% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Importin subunit beta-3 | protein | 1027 | 75% helix, 1% strand | P32337 |
| B | Ubiquitin-like-specific protease 1 (EC 3.4.22.68) | protein | 5 | 0% helix, 0% strand | Q02724 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 258 | 0.61 | 0.80 | 43 | empty |
| 2 | 205 | 0.49 | 0.75 | 23 | empty |
| 3 | 53 | 0.34 | 0.78 | 14 | empty |
| 4 | 73 | 0.29 | 0.72 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 400 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 5H2V · Crystal structure of the karyopherin Kap121p bound to the SUMO protease Ulp1p · the same entry in another collection · chain A against A, TM-score 1.00
- P32337 · AlphaFold monomer V2.0 prediction for importin subunit beta-3 (P32337) · a predicted model of the same protein · chain A 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 0.64
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 P32337
- Every structure of UniProt Q02724
- Elsewhere: RCSB PDB 5H2V · PDBe 5H2V · UniProt P32337 · UniProt Q02724
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