Research workbench
Crystal structure of Penicillin Binding Protein 5 (PBP5) T485A variant with S466 insertion apo form from Enterococcus faecium
Analyse Crystal structure of Penicillin Binding Protein 5 (PBP5) T485A variant with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8F3M
- Type
- protein
- Length
- 642 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.81
- Source
- Enterococcus faecium
- Molecule
- Penicillin binding protein 5
- UniProt
- G5CKR9
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.57
Structure
x-ray diffraction · resolution 2.81 · 1 distinct chain · 33% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Penicillin binding protein 5 | protein | 642 | 33% helix, 26% strand | G5CKR9 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 18 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 320 | 0.57 | 0.76 | 53 | empty |
| 2 | 179 | 0.44 | 0.75 | 31 | empty |
| 3 | 58 | 0.41 | 0.81 | 16 | empty |
| 4 | 84 | 0.33 | 0.74 | 19 | SO4 |
| 5 | 59 | 0.29 | 0.75 | 18 | empty |
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 G5CKR9
- Elsewhere: RCSB PDB 8F3M · PDBe 8F3M · UniProt G5CKR9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.