Research workbench
D(TCGGCGCCGA) with lambda-[RU(TAP)2(DPPZ)]2+ soaked in D2O
Analyse D(TCGGCGCCGA) with lambda-[RU(TAP)2(DPPZ)]2+ soaked in D2O in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4R8J
- Type
- DNA
- Length
- 10 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*(THM)P*CP*GP*GP*CP*GP*CP*CP*GP*A)-3')
- Ligands
- RKL, BA, CL
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*(THM)P*CP*GP*GP*CP*GP*CP*CP*GP*A)-3') | dna | 10 | — | — |
Ligands and binding sites
- RKL · Ru(tap)2(dppz) complex · ligand · chains A
- BA · Barium ion · metal · chains A
- CL · Chloride ion · ion
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 4R8J · d(TCGGCGCCGA) with lambda-[Ru(TAP)2(dppz)]2+ soaked in D2O · 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 4R8J · PDBe 4R8J
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