MolNFT v1 · #27831 · protein + DNA
X-ray structure of an echinomycin-(GCGTACGC)2 complex
1XVK · 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3': “X-ray structure of an echinomycin-(GCGTACGC)2 complex”. X-ray diffraction, 2 ligands (QUI, MG). MolNFT v1 #27831 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1XVK
- Type
- protein + DNA
- Length
- 16 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3'; Echinomycin
- Ligands
- QUI, MG
Structure
x-ray diffraction · 2 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3' | dna | 8 | — | — |
| B | Echinomycin | protein | 8 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 238 Ų buried · 3 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 modified, 2 covalent, 2 d-amino (covalent ligand, D-amino acid, methylation, nonstandard).
Compared structures
- 1XVK · X-ray structure of an Echinomycin-(GCGTACGC)2 complex · 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 1XVK · PDBe 1XVK
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