Research workbench
Structure of the type VI peptidoglycan amidase effector TSE1 from pseudomonas aeruginosa
Analyse Structure of the type VI peptidoglycan amidase effector TSE1 from pseudomonas… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EOB
- Type
- protein
- Length
- 588 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type VI amidase effector TSE1
- UniProt
- Q9I2Q1
- Pockets
- 6 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 37% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Type VI amidase effector TSE1 | protein | 147 | 37% helix, 21% strand | Q9I2Q1 |
| B | Type VI amidase effector TSE1 | protein | 146 | 37% helix, 21% strand | Q9I2Q1 |
| C | Type VI amidase effector TSE1 | protein | 148 | 36% helix, 25% strand | Q9I2Q1 |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 891 | 0.69 | 0.75 | 99 | empty |
| 2 | 134 | 0.49 | 0.79 | 32 | empty |
| 3 | 105 | 0.46 | 0.80 | 27 | empty |
| 4 | 111 | 0.46 | 0.79 | 29 | empty |
| 5 | 87 | 0.31 | 0.72 | 21 | empty |
Interfaces
5 interfaces between chains.
- A–B · 717 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 702 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 369 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 358 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 60 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4EOB · Structure of the type VI peptidoglycan amidase effector Tse1 from Pseudomonas aeruginosa · the same entry in another collection · chain A against A, TM-score 1.00
- Q9I2Q1 · AlphaFold monomer V2.0 prediction for peptidoglycan amidase TSE1 (Q9I2Q1) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 Q9I2Q1
- Elsewhere: RCSB PDB 4EOB · PDBe 4EOB · UniProt Q9I2Q1
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