Research workbench
Structural implications of homo-pyrimidine base pairs on the parallel- stranded D(GAY) motif.
Analyse Structural implications of homo-pyrimidine base pairs on the parallel- stranded… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZYM
- Type
- DNA
- Length
- 41 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*AP*CP*TP*CP*GP*GP*AP*CP*GP*AP*T)-3')
- Ligands
- MG
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | DNA (5'-D(*AP*CP*TP*CP*GP*GP*AP*CP*GP*AP*T)-3') | dna | 10 | — | — |
| D | DNA (5'-D(*AP*CP*TP*CP*GP*GP*AP*CP*GP*AP*T)-3') | dna | 11 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 4 copies · chains A, D, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
2 interfaces between chains.
- C–D · 645 Ų buried · 41 hydrogen bonds · nucleic-nucleic
- A–B · 612 Ų buried · 41 hydrogen bonds · nucleic-nucleic
Compared structures
- 4ZYM · Structural implications of homo-pyrimidine base pairs on the parallel-stranded d(GAY)… · 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 4ZYM · PDBe 4ZYM
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.