Research workbench
Pseudomonas aeruginosa metap with met, in mn form
Analyse Pseudomonas aeruginosa metap with met, in mn form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4FO8
- Type
- protein
- Length
- 1,045 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine aminopeptidase
- EC
- 3.4.11.18
- UniProt
- Q9HXY1
- Ligands
- MET, MN
- Pockets
- 12 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 29% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Methionine aminopeptidase (EC 3.4.11.18) | protein | 259 | 28% helix, 27% strand | Q9HXY1 |
| B | Methionine aminopeptidase (EC 3.4.11.18) | protein | 261 | 28% helix, 27% strand | Q9HXY1 |
| C | Methionine aminopeptidase (EC 3.4.11.18) | protein | 266 | 31% helix, 26% strand | Q9HXY1 |
Ligands and binding sites
- MET · Methionine · ligand · 4 copies · chains A, B, C, D
- MN · Manganese (II) ion · metal · 13 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 487 | 0.71 | 0.81 | 44 | empty |
| 2 | 544 | 0.68 | 0.78 | 62 | empty |
| 3 | 363 | 0.63 | 0.78 | 39 | empty |
| 4 | 133 | 0.59 | 0.84 | 20 | MET |
| 5 | 149 | 0.58 | 0.83 | 25 | MET |
Interfaces
4 interfaces between chains.
- B–D · 731 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 408 Ų buried · 6 hydrogen bonds · protein-protein
- A–D · 339 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 84 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4FO8 · Pseudomonas aeruginosa MetAP with Met, in Mn form · 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 Q9HXY1
- Elsewhere: RCSB PDB 4FO8 · PDBe 4FO8 · UniProt Q9HXY1
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