Research workbench
Engineered streptavidin variant (enagy) in complex with the twin- strep-tag peptide
Analyse Engineered streptavidin variant (enagy) in complex with the twin- strep-tag… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SOS
- Type
- protein
- Length
- 518 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Streptavidin; Twin-strep-tag peptide
- UniProt
- P22629
- Ligands
- NH2
- Pockets
- 6 · best druggability 0.62
Structure
x-ray diffraction · 5 distinct chains · 9% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Streptavidin | protein | 122 | 7% helix, 56% strand | P22629 |
| B | Streptavidin | protein | 122 | 7% helix, 55% strand | P22629 |
| C, D | Streptavidin | protein | 121 | 7% helix, 55% strand | P22629 |
| P | Twin-strep-tag peptide | protein | 18 | 17% helix, 0% strand | — |
| R | Twin-strep-tag peptide | protein | 14 | 43% helix, 0% strand | — |
Ligands and binding sites
- NH2 · Amino group · ion · 2 copies · chains C, P, D, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 238 | 0.62 | 0.82 | 36 | empty |
| 2 | 287 | 0.62 | 0.80 | 35 | empty |
| 3 | 273 | 0.62 | 0.80 | 34 | empty |
| 4 | 219 | 0.61 | 0.82 | 32 | empty |
| 5 | 165 | 0.46 | 0.76 | 33 | empty |
Interfaces
10 interfaces between chains.
- A–B · 1652 Ų buried · 26 hydrogen bonds · protein-protein
- C–D · 1613 Ų buried · 28 hydrogen bonds · protein-protein
- B–P · 741 Ų buried · 8 hydrogen bonds · protein-protein
- A–R · 617 Ų buried · 8 hydrogen bonds · protein-protein
- D–R · 608 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6SOS · Engineered streptavidin variant (ENAGY) in complex with the Twin-Strep-tag peptide · the same entry in another collection · chain A against A, TM-score 1.00
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 P22629
- Elsewhere: RCSB PDB 6SOS · PDBe 6SOS · UniProt P22629
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