Research workbench
Crystal structure of housekeeping sortase srta bound with self derived tripeptide from lactobacillus rhamnosus gg
Analyse Crystal structure of housekeeping sortase srta bound with self derived… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7F87
- Type
- protein
- Length
- 296 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Class a sortase; Self derived peptide
- UniProt
- A0A0E3D3H8
- Ligands
- PO4
- Pockets
- 1 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Class a sortase | protein | 145 | 17% helix, 42% strand | A0A0E3D3H8 |
| F, G | Self derived peptide | protein | 3 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 319 | 0.52 | 0.73 | 38 | empty |
Interfaces
3 interfaces between chains.
- A–B · 655 Ų buried · 5 hydrogen bonds · protein-protein
- B–G · 297 Ų buried · 2 hydrogen bonds · protein-protein
- A–F · 284 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (oxidation).
Compared structures
- 7F87 · Crystal structure of housekeeping sortase SrtA bound with self derived tripeptide from… · 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 A0A0E3D3H8
- Elsewhere: RCSB PDB 7F87 · PDBe 7F87 · UniProt A0A0E3D3H8
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