MolNFT v1 · #146599 · RNA
Ppgpp riboswitch bound to ppgpp, manganese chloride structure
6DMD: “Ppgpp riboswitch bound to ppgpp, manganese chloride structure”. X-ray diffraction, 4 ligands (MN, NA, MG). MolNFT v1 #146599 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6DMD
- Type
- RNA
- Length
- 206 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Ligands
- MN, NA, MG, K
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | — | rna | 103 | — | — |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 10 copies · chains A, B
- NA · Sodium ion · metal · 8 copies · chains A, B
- MG · Magnesium ion · metal · 8 copies · chains A, B
- K · Potassium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6DMD · ppGpp Riboswitch bound to ppGpp, manganese chloride structure · the same entry in another collection · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 6DMD · PDBe 6DMD
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