MolNFT v1 · #169362 · protein + DNA
Human DNMT1(729-1600) bound to zebularine-containing 12MER dsdna and inhibitor GSK3685032A
6X9K: “Human DNMT1(729-1600) bound to zebularine-containing 12MER dsdna and inhibitor GSK3685032A”. X-ray diffraction, 2 ligands (UXM, ZN). MolNFT v1 #169362 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6X9K
- Type
- protein + DNA
- Length
- 866 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P26358
- Ligands
- UXM, ZN
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 842 | — | P26358 |
| C | — | dna | 12 | — | — |
| D | — | dna | 12 | — | — |
Ligands and binding sites
- UXM · (2R)-2-{[6-(4-aminopiperidin-1-yl)-3,5-dicyano-4-ethylpyridin-2-yl]sulfanyl}-2-phenylacetamide · ligand · chains A, C, D
- ZN · Zinc ion · metal · 2 copies · chains A
- EDO · 1,2-ethanediol · additive · 9 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- P26358 · AlphaFold monomer V2.0 prediction for DNA (cytosine-5)-methyltransferase 1 (P26358) · a predicted model of the same protein · chain A against A, TM-score 0.98
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P26358
- Elsewhere: RCSB PDB 6X9K · PDBe 6X9K · UniProt P26358
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