Research workbench
Crystal structure of inner membrane protein BQT4 in complex with telomeric protein RAP1
Analyse Crystal structure of inner membrane protein BQT4 in complex with telomeric… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YC2
- Type
- protein
- Length
- 431 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-like protein SMT3,BOUQUET formation protein 4; DNA-binding protein RAP1
- UniProt
- Q12306, O60158, Q96TL7
- Pockets
- 5 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 33% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin-like protein SMT3,BOUQUET formation protein 4 | protein | 202 | 30% helix, 30% strand | Q12306, O60158 |
| B | DNA-binding protein RAP1 | protein | 14 | 64% helix, 0% strand | Q96TL7 |
| C | Ubiquitin-like protein SMT3,BOUQUET formation protein 4 | protein | 200 | 31% helix, 29% strand | Q12306, O60158 |
| D | DNA-binding protein RAP1 | protein | 15 | 80% helix, 0% strand | Q96TL7 |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 703 | 0.69 | 0.77 | 59 | empty |
| 2 | 205 | 0.50 | 0.76 | 29 | empty |
| 3 | 145 | 0.42 | 0.75 | 29 | empty |
| 4 | 80 | 0.36 | 0.76 | 14 | empty |
| 5 | 57 | 0.26 | 0.73 | 11 | empty |
Interfaces
4 interfaces between chains.
- A–B · 622 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 545 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 366 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 40 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5YC2 · Crystal structure of inner membrane protein Bqt4 in complex with telomeric protein Rap1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q96TL7 · AlphaFold monomer V2.0 prediction for DNA-binding protein RAP1 (Q96TL7) · a predicted model of the same protein · chain D against A, TM-score 0.78
- O60158 · AlphaFold monomer V2.0 prediction for bouquet formation protein 4 (O60158) · a predicted model of the same protein · chain C against A, TM-score 0.67
- 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 Q96TL7
- Elsewhere: RCSB PDB 5YC2 · PDBe 5YC2 · UniProt Q12306 · UniProt O60158 · UniProt Q96TL7
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