MolNFT v1 · #105509 · protein
Crystal structure of bacteriophytochrome RPBPHP3 from photosynthetic bacterium R. palustris
4R70 · Bacteriophytochrome (light-regulated signal transduction…: “Crystal structure of bacteriophytochrome RPBPHP3 from photosynthetic bacterium R. palustris”. X-ray diffraction, 1 ligand (BLA), 8 pockets (best druggability 0.81). MolNFT…
- PDB
- 4R70
- Type
- protein
- Length
- 984 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bacteriophytochrome (light-regulated signal transduction histidine kinase), PHYB2
- UniProt
- Q6N5G2
- Ligands
- BLA
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bacteriophytochrome (light-regulated signal transduction histidine kinase), PHYB2 | protein | 498 | 37% helix, 26% strand | Q6N5G2 |
| B | Bacteriophytochrome (light-regulated signal transduction histidine kinase), PHYB2 | protein | 486 | 38% helix, 25% strand | Q6N5G2 |
Ligands and binding sites
- BLA · Biliverdine IX alpha · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 528 | 0.81 | 0.87 | 73 | BLA |
| 2 | 558 | 0.81 | 0.87 | 68 | BLA |
| 3 | 615 | 0.72 | 0.79 | 71 | empty |
| 4 | 286 | 0.69 | 0.84 | 29 | empty |
| 5 | 299 | 0.51 | 0.73 | 39 | empty |
Interfaces
1 interface between chains.
- A–B · 2040 Ų buried · 20 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor (biliverdin attachment).
Compared structures
- 4R70 · Crystal structure of bacteriophytochrome RpBphP3 from photosynthetic bacterium R.… · 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 Q6N5G2
- Elsewhere: RCSB PDB 4R70 · PDBe 4R70 · UniProt Q6N5G2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.