Research workbench
Crystal structure of the enterococcus faecalis gluconate specific eiia phosphotransferase system component
Analyse Crystal structure of the enterococcus faecalis gluconate specific eiia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IPR
- Type
- protein
- Length
- 836 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pts system, iia component
- UniProt
- Q82ZC8
- Ligands
- CA
- Pockets
- 3 · best druggability 0.49
Structure
x-ray diffraction · 3 distinct chains · 51% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pts system, iia component | protein | 137 | 50% helix, 19% strand | Q82ZC8 |
| B, D, E, F | Pts system, iia component | protein | 140 | 53% helix, 19% strand | Q82ZC8 |
| C | Pts system, iia component | protein | 139 | 50% helix, 19% strand | Q82ZC8 |
Ligands and binding sites
- CA · Calcium ion · metal · 10 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 262 | 0.49 | 0.74 | 34 | empty |
| 2 | 130 | 0.37 | 0.73 | 22 | empty |
| 3 | 126 | 0.36 | 0.73 | 23 | empty |
Interfaces
8 interfaces between chains.
- E–F · 1884 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1882 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1860 Ų buried · 18 hydrogen bonds · protein-protein
- A–F · 498 Ų buried · 9 hydrogen bonds · protein-protein
- B–E · 157 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3IPR · Crystal structure of the Enterococcus faecalis gluconate specific EIIA phosphotransferase… · 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 Q82ZC8
- Elsewhere: RCSB PDB 3IPR · PDBe 3IPR · UniProt Q82ZC8
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