Research workbench
Crystal structure of D(CXCTXCTTC):R(GAAGAAGAG) where X is 5-(N- AMINOHEXYL)CARBAMOYL-2'-O-methyluridine
Analyse Crystal structure of D(CXCTXCTTC):R(GAAGAAGAG) where X is 5-(N… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2DQQ
- Type
- DNA + RNA
- Length
- 18 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*DCP*(OMU)P*DCP*DTP*(OMU)P*DCP*DTP*DTP*DC)-3'); RNA…
- Ligands
- CMY
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*DCP*(OMU)P*DCP*DTP*(OMU)P*DCP*DTP*DTP*DC)-3') | dna | 9 | — | — |
| B | RNA (5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*G)-3') | rna | 9 | — | — |
Ligands and binding sites
- CMY · (6-aminohexyl)carbamic acid · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 423 Ų buried · 43 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 covalent, 2 modified (covalent ligand, nucleotide modification).
Compared structures
- 2DQQ · Crystal Structure of d(CXCTXCTTC):r(gaagaagag) Where X is… · 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 2DQQ · PDBe 2DQQ
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