MolNFT v1 · #116911 · DNA
Crystal structure of holliday junctions stabilized by 5- hydroxymethylcytosine in gcc junction core
5DSB · 5'-D(*CP*CP*GP*GP*CP*GP*5HCP*CP*GP*G)-3': “Crystal structure of holliday junctions stabilized by 5- hydroxymethylcytosine in gcc junction core”. X-ray diffraction, 1 ligand (CA). MolNFT v1 #116911 on GenesisL1: 3D structure, binding…
- PDB
- 5DSB
- Type
- DNA
- Length
- 20 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*CP*CP*GP*GP*CP*GP*5HCP*CP*GP*G)-3'
- Ligands
- CA
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 5'-D(*CP*CP*GP*GP*CP*GP*5HCP*CP*GP*G)-3' | dna | 10 | — | — |
Ligands and binding sites
- CA · Calcium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 324 Ų buried · 29 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 5DSB · Crystal structure of Holliday junctions stabilized by 5-hydroxymethylcytosine in GCC… · 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 5DSB · PDBe 5DSB
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