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Crystal structure of periplasmic glucose binding protein ppgbp deletion mutant- del-ppgbp
Analyse Crystal structure of periplasmic glucose binding protein ppgbp deletion mutant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5XPJ
- Type
- protein
- Length
- 776 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Binding protein component of ABC sugar transporter
- UniProt
- H7BRJ8
- Pockets
- 5 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Binding protein component of ABC sugar transporter | protein | 389 | 51% helix, 14% strand | H7BRJ8 |
| B | Binding protein component of ABC sugar transporter | protein | 387 | 51% helix, 14% strand | H7BRJ8 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1111 | 0.76 | 0.78 | 106 | empty |
| 2 | 592 | 0.71 | 0.79 | 50 | empty |
| 3 | 431 | 0.66 | 0.79 | 42 | empty |
| 4 | 58 | 0.44 | 0.83 | 16 | empty |
| 5 | 88 | 0.31 | 0.72 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 559 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5XPJ · Crystal Structure of Periplasmic glucose binding protein ppGBP deletion mutant- Del-ppGBP · 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 H7BRJ8
- Elsewhere: RCSB PDB 5XPJ · PDBe 5XPJ · UniProt H7BRJ8
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