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Crystal structure of LP_1913 protein from lactobacillus plantarum, northeast structural genomics consortium target LPR140A
Analyse Crystal structure of LP_1913 protein from lactobacillus plantarum, northeast… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3I3U
- Type
- protein
- Length
- 507 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein LP_1913
- UniProt
- Q88VW8
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · 6 distinct chains · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein LP_1913 | protein | 82 | 43% helix, 15% strand | Q88VW8 |
| B | Uncharacterized protein LP_1913 | protein | 86 | 40% helix, 20% strand | Q88VW8 |
| C | Uncharacterized protein LP_1913 | protein | 84 | 39% helix, 20% strand | Q88VW8 |
| D | Uncharacterized protein LP_1913 | protein | 87 | 40% helix, 21% strand | Q88VW8 |
| E | Uncharacterized protein LP_1913 | protein | 82 | 39% helix, 20% strand | Q88VW8 |
| F | Uncharacterized protein LP_1913 | protein | 86 | 41% helix, 21% strand | Q88VW8 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 731 | 0.67 | 0.75 | 71 | empty |
| 2 | 159 | 0.51 | 0.78 | 14 | empty |
| 3 | 144 | 0.47 | 0.77 | 13 | empty |
| 4 | 160 | 0.41 | 0.73 | 29 | empty |
| 5 | 87 | 0.29 | 0.72 | 18 | empty |
Interfaces
11 interfaces between chains.
- A–B · 636 Ų buried · 1 hydrogen bond · protein-protein
- D–E · 634 Ų buried · 2 hydrogen bonds · protein-protein
- D–F · 625 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 624 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 621 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 3I3U · Crystal structure of lp_1913 protein from lactobacillus plantarum, northeast structural… · 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 Q88VW8
- Elsewhere: RCSB PDB 3I3U · PDBe 3I3U · UniProt Q88VW8
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