Research workbench
Crystallographic structure of the pseudo-signaling state of the bluf photoreceptor pixd (SLR1694) Y8F mutant
Analyse Crystallographic structure of the pseudo-signaling state of the bluf… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3MZI
- Type
- protein
- Length
- 840 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Activator of photopigment and puc expression
- UniProt
- P74295
- Ligands
- FMN
- Pockets
- 16 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Activator of photopigment and puc expression | protein | 140 | 34% helix, 29% strand | P74295 |
Ligands and binding sites
- FMN · Flavin mononucleotide · ligand · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 704 | 0.70 | 0.77 | 68 | empty |
| 2 | 616 | 0.69 | 0.78 | 64 | empty |
| 3 | 212 | 0.69 | 0.86 | 32 | FMN |
| 4 | 150 | 0.69 | 0.89 | 20 | FMN |
| 5 | 124 | 0.67 | 0.89 | 20 | FMN |
Interfaces
7 interfaces between chains.
- A–B · 702 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 674 Ų buried · 9 hydrogen bonds · protein-protein
- E–F · 662 Ų buried · 12 hydrogen bonds · protein-protein
- C–E · 589 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 513 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3MZI · Crystallographic structure of the pseudo-Signaling State of the BLUF Photoreceptor PixD… · 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 P74295
- Elsewhere: RCSB PDB 3MZI · PDBe 3MZI · UniProt P74295
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.