MolNFT v1 · #139856 · protein
Xylfii-lytsn complex mutant - D103A
5XSD · Periplasmic binding PROTEIN/LACI transcriptional regulator: “Xylfii-lytsn complex mutant - D103A”. X-ray diffraction, 8 pockets (best druggability 0.64). MolNFT v1 #139856 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5XSD
- Type
- protein
- Length
- 647 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periplasmic binding PROTEIN/LACI transcriptional regulator; Signal transduction histidine…
- UniProt
- A6LW07, A6LW08
- Pockets
- 8 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 52% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Periplasmic binding PROTEIN/LACI transcriptional regulator | protein | 250 | 43% helix, 22% strand | A6LW07 |
| B | Periplasmic binding PROTEIN/LACI transcriptional regulator | protein | 276 | 45% helix, 20% strand | A6LW07 |
| L | Signal transduction histidine kinase, lyts | protein | 121 | 85% helix, 0% strand | A6LW08 |
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 580 | 0.64 | 0.75 | 46 | empty |
| 2 | 211 | 0.49 | 0.75 | 32 | empty |
| 3 | 160 | 0.48 | 0.77 | 26 | empty |
| 4 | 166 | 0.48 | 0.77 | 28 | empty |
| 5 | 75 | 0.42 | 0.79 | 16 | empty |
Interfaces
2 interfaces between chains.
- B–L · 674 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 664 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 5XSD · XylFII-LytSN complex mutant - D103A · 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 A6LW07
- Every structure of UniProt A6LW08
- Elsewhere: RCSB PDB 5XSD · PDBe 5XSD · UniProt A6LW07 · UniProt A6LW08
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