MolNFT v1 · #51877 · protein
Complexes of dodecin with flavin and flavin-like ligands
2VKF: “Complexes of dodecin with flavin and flavin-like ligands”. X-ray diffraction, 5 ligands (CF2, MG, NA). MolNFT v1 #51877 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2VKF
- Type
- protein
- Length
- 62 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dodecin
- UniProt
- Q9HPW4
- Ligands
- CF2, MG, NA, CL, SO4
Structure
x-ray diffraction · 1 distinct chain · 24% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dodecin | protein | 62 | 24% helix, 56% strand | Q9HPW4 |
Ligands and binding sites
- CF2 · 2'-deoxy-5'-O-{[2-(7,8-dimethyl-2,4-dioxo-3,4-dihydrobenzo[g]pteridin-10(2H)-yl)ethyl]carbamoyl}guanosine · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- CL · Chloride ion · ion · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 2VKF · Complexes of dodecin with flavin and flavin-like ligands · 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 Q9HPW4
- Elsewhere: RCSB PDB 2VKF · PDBe 2VKF · UniProt Q9HPW4
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