MolNFT v1 · #156470 · DNA
X-ray crystal structure of cyclic-pip and DNA complex in a reverse binding orientation
6M5B · DNA (5'-D(*CP*(CBR)P*AP*GP*GP*CP*CP*TP*GP*G)-3'): “X-ray crystal structure of cyclic-pip and DNA complex in a reverse binding orientation”. X-ray diffraction, 3 ligands (S7E, MG, NA). MolNFT v1 #156470 on GenesisL1: 3D structure…
- PDB
- 6M5B
- Type
- DNA
- Length
- 10 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*(CBR)P*AP*GP*GP*CP*CP*TP*GP*G)-3')
- Ligands
- S7E, MG, NA
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*CP*(CBR)P*AP*GP*GP*CP*CP*TP*GP*G)-3') | dna | 10 | — | — |
Ligands and binding sites
- S7E · 4-[[4-[(4-azanyl-1-methyl-pyrrol-2-yl)carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-~{N}-[2-[[(3~{S})-3-azanyl-4-oxidanylidene-butyl]carbamoyl]-1-methyl-imidazol-4-yl]-1-methyl-imidazole-2-carboxamide · ligand · chains A
- MG · Magnesium ion · metal · chains A
- NA · Sodium ion · metal
- EDO · 1,2-ethanediol · additive
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
- 6M5B · X-ray crystal structure of cyclic-PIP and DNA complex in a reverse binding orientation · 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 6M5B · PDBe 6M5B
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