MolNFT v1 · #167303 · protein + DNA
Crystal structure of DPO4 with 8-oxoadenine (oxoa) and dttp*
6VGM: “Crystal structure of DPO4 with 8-oxoadenine (oxoa) and dttp*”. X-ray diffraction, 2 ligands (1FZ, MG). MolNFT v1 #167303 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6VGM
- Type
- protein + DNA
- Length
- 740 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A0A0E3K6E9
- Ligands
- 1FZ, MG
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | — | protein | 341 | — | A0A0E3K6E9 |
| B, P | — | dna | 13 | — | — |
| C, T | — | dna | 16 | — | — |
Ligands and binding sites
- 1FZ · 5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]thymidine · ligand · 2 copies · chains A, P, T, B, C, D
- MG · Magnesium ion · metal · 4 copies · chains A, P, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6VGM · Crystal structure of DPO4 with 8-oxoadenine (oxoA) and dTTP* · 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
- Every structure of UniProt A0A0E3K6E9
- Elsewhere: RCSB PDB 6VGM · PDBe 6VGM · UniProt A0A0E3K6E9
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