MolNFT v1 · #60389 · protein
Crystal structure of the LP_1622 protein from lactobacillus plantarum. northeast structural genomics consortium target LPR114
3CQ9 · Uncharacterized protein LP_1622: “Crystal structure of the LP_1622 protein from lactobacillus plantarum. northeast structural genomics…”. X-ray diffraction, 1 ligand (SO4), 6 pockets (best druggability 0.73). MolNFT v1 #60389 on…
- PDB
- 3CQ9
- Type
- protein
- Length
- 837 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein LP_1622
- UniProt
- Q88WK7
- Ligands
- SO4
- Pockets
- 6 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 25% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein LP_1622 | protein | 202 | 25% helix, 35% strand | Q88WK7 |
| B | Uncharacterized protein LP_1622 | protein | 219 | 27% helix, 32% strand | Q88WK7 |
| C | Uncharacterized protein LP_1622 | protein | 213 | 25% helix, 33% strand | Q88WK7 |
| D | Uncharacterized protein LP_1622 | protein | 203 | 22% helix, 35% strand | Q88WK7 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 4 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 519 | 0.73 | 0.81 | 68 | empty |
| 2 | 411 | 0.66 | 0.79 | 48 | empty |
| 3 | 411 | 0.64 | 0.78 | 50 | empty |
| 4 | 456 | 0.64 | 0.77 | 55 | empty |
| 5 | 102 | 0.48 | 0.81 | 26 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1534 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1441 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 596 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 17 modified (engineered).
Compared structures
- 3CQ9 · Crystal structure of the lp_1622 protein from Lactobacillus plantarum. Northeast… · 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 Q88WK7
- Elsewhere: RCSB PDB 3CQ9 · PDBe 3CQ9 · UniProt Q88WK7
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