Research workbench
Crystal structure of inner membrane protein BQT4 in complex with LEM2
Analyse Crystal structure of inner membrane protein BQT4 in complex with LEM2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YCA
- Type
- protein
- Length
- 223 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-like protein SMT3,BOUQUET formation protein 4; Lap-emerin-man domain protein 2
- UniProt
- Q12306, O60158, Q10109
- Pockets
- 2 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin-like protein SMT3,BOUQUET formation protein 4 | protein | 206 | 33% helix, 28% strand | Q12306, O60158 |
| C | Lap-emerin-man domain protein 2 | protein | 17 | 76% helix, 0% strand | Q10109 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 111 | 0.48 | 0.79 | 18 | empty |
| 2 | 142 | 0.45 | 0.77 | 27 | empty |
Interfaces
1 interface between chains.
- A–C · 578 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5YCA · Crystal structure of inner membrane protein Bqt4 in complex with LEM2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q10109 · AlphaFold monomer V2.0 prediction for lap-emerin-man domain protein 2 (Q10109) · a predicted model of the same protein · chain C against A, TM-score 0.74
- O60158 · AlphaFold monomer V2.0 prediction for bouquet formation protein 4 (O60158) · a predicted model of the same protein · chain A against A, TM-score 0.66
- Q12306 · AlphaFold monomer V2.0 prediction for ubiquitin-like protein SMT3 (Q12306) · a predicted model of the same protein · chain A against A, TM-score 0.38
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 Q12306
- Every structure of UniProt O60158
- Every structure of UniProt Q10109
- Elsewhere: RCSB PDB 5YCA · PDBe 5YCA · UniProt Q12306 · UniProt O60158 · UniProt Q10109
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