Research workbench
Structure of protein of unknown function PA5198 from pseudomonas aeruginosa
Analyse Structure of protein of unknown function PA5198 from pseudomonas aeruginosa in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZL0
- Type
- protein
- Length
- 609 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein PA5198
- UniProt
- Q9HTZ1
- Ligands
- K, NA
- Pockets
- 8 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein PA5198 | protein | 306 | 34% helix, 23% strand | Q9HTZ1 |
| B | Hypothetical protein PA5198 | protein | 303 | 35% helix, 23% strand | Q9HTZ1 |
Ligands and binding sites
- K · Potassium ion · metal · 2 copies · chains A, B
- NA · Sodium ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 12 copies · chains A, B
- TLA · L(+)-tartaric acid · additive · chains A, B
- GOL · Glycerol · additive · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 364 | 0.61 | 0.77 | 45 | EDO, PEG |
| 2 | 305 | 0.59 | 0.77 | 37 | K, TLA, EDO |
| 3 | 52 | 0.51 | 0.88 | 15 | empty |
| 4 | 181 | 0.48 | 0.76 | 23 | EDO |
| 5 | 148 | 0.45 | 0.76 | 23 | EDO |
Interfaces
1 interface between chains.
- A–B · 1514 Ų buried · 35 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent (additive adduct).
Compared structures
- 1ZL0 · Structure of Protein of Unknown Function PA5198 from Pseudomonas aeruginosa · the same entry in another collection · chain A against A, TM-score 1.00
- Q9HTZ1 · AlphaFold monomer V2.0 prediction for murein tetrapeptide carboxypeptidase (Q9HTZ1) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 Q9HTZ1
- Elsewhere: RCSB PDB 1ZL0 · PDBe 1ZL0 · UniProt Q9HTZ1
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