Research workbench
Crystal structure of pseudomonas aeruginosa earp in complex with tdp- rha
Analyse Crystal structure of pseudomonas aeruginosa earp in complex with tdp- rha in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6J7K
- Type
- protein
- Length
- 385 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pseudomonas aeruginosa earp
- UniProt
- Q9HZZ1
- Ligands
- TRH
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pseudomonas aeruginosa earp | protein | 385 | 41% helix, 18% strand | Q9HZZ1 |
Ligands and binding sites
- TRH · 2'-deoxy-thymidine-beta-L-rhamnose · ligand · chains A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 62 | 0.74 | 0.98 | 18 | empty |
| 2 | 271 | 0.72 | 0.85 | 31 | TRH |
| 3 | 76 | 0.36 | 0.77 | 14 | empty |
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 6J7K · Crystal structure of Pseudomonas aeruginosa Earp in complex with TDP-Rha · the same entry in another collection · chain A against A, TM-score 1.00
- Q9HZZ1 · AlphaFold monomer V2.0 prediction for protein-arginine rhamnosyltransferase (Q9HZZ1) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q9HZZ1
- Elsewhere: RCSB PDB 6J7K · PDBe 6J7K · UniProt Q9HZZ1
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