Research workbench
Crystal structure of the full-length lp_1913 protein from Lactobacillus plantarum, Northeast Structural Genomics Consortium Target LpR140
Analyse Crystal structure of the full-length lp_1913 protein from Lactobacillus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3FNJ
- Type
- protein
- Length
- 723 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.7
- Source
- Lactobacillus plantarum
- Molecule
- protein lp_1913
- UniProt
- Q88VW8
- Pockets
- 9 · best druggability 0.78
Structure
x-ray diffraction · resolution 2.7 · 3 distinct chains · 36% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, F | protein lp_1913 | protein | 120 | 39% helix, 21% strand | Q88VW8 |
| B | protein lp_1913 | protein | 121 | 33% helix, 15% strand | Q88VW8 |
| D | protein lp_1913 | protein | 122 | 36% helix, 20% strand | Q88VW8 |
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 665 | 0.78 | 0.83 | 82 | empty |
| 2 | 662 | 0.75 | 0.81 | 78 | empty |
| 3 | 294 | 0.60 | 0.79 | 50 | empty |
| 4 | 265 | 0.60 | 0.79 | 34 | empty |
| 5 | 210 | 0.57 | 0.79 | 36 | empty |
Interfaces
11 interfaces between chains.
- A–B · 840 Ų buried · 2 hydrogen bonds · protein-protein
- D–F · 824 Ų buried · 2 hydrogen bonds · protein-protein
- E–F · 720 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 704 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 679 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 23 modified (engineered).
Compared structures
- 3FNJ · Crystal structure of the full-length LP_1913 protein from lactobacillus plantarum… · 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 3FNJ · PDBe 3FNJ · UniProt Q88VW8
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.