MolNFT v1 · #164962 · RNA
Crystal structure of the ADP-binding domain of the NAD+ riboswitch with nicotinamide adenine dinucleotide, reduced (NADH)
6TF0 · Chains: a: “Crystal structure of the ADP-binding domain of the NAD+ riboswitch with nicotinamide adenine dinucleotide…”. X-ray diffraction, 3 ligands (NAI, MG, NA), 1 pocket (best druggability 0.57). MolNFT v1 #164962 on GenesisL1…
- PDB
- 6TF0
- Type
- RNA
- Length
- 52 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chains: a
- Ligands
- NAI, MG, NA
- Pockets
- 1 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chains: a | rna | 52 | — | — |
Ligands and binding sites
- NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · chains A
- MG · Magnesium ion · metal · 8 copies · chains A
- NA · Sodium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 565 | 0.57 | 0.72 | 29 | MG |
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 6TF0 · Crystal structure of the ADP-binding domain of the NAD+ riboswitch with Nicotinamide… · 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
- Elsewhere: RCSB PDB 6TF0 · PDBe 6TF0
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