MolNFT v1 · #40691 · protein
Thermus DNA photolyase with FMN antenna chromophore
2J09 · Deoxyribodipyrimidine photo-lyase: “Thermus DNA photolyase with FMN antenna chromophore”. X-ray diffraction, 4 ligands (FAD, FMN, PO4), 2 pockets (best druggability 0.84). MolNFT v1 #40691 on GenesisL1: 3D structure, binding sites…
- PDB
- 2J09
- Type
- protein
- Length
- 419 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Deoxyribodipyrimidine photo-lyase
- EC
- 4.1.99.3
- UniProt
- P61497
- Ligands
- FAD, FMN, PO4, CL
- Pockets
- 2 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Deoxyribodipyrimidine photo-lyase (EC 4.1.99.3) | protein | 419 | 51% helix, 6% strand | P61497 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · chains A
- FMN · Flavin mononucleotide · ligand · chains A
- PO4 · Phosphate ion · ion · 2 copies · chains A
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 451 | 0.84 | 0.91 | 42 | FAD |
| 2 | 741 | 0.81 | 0.84 | 63 | FMN, PO4 |
Compared structures
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 P61497
- Elsewhere: RCSB PDB 2J09 · PDBe 2J09 · UniProt P61497
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