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Ternary complex crystal structure of K289M variant of DNA polymerase beta with "hot-spot sequence" with beta-gamma methylene dgtp
Analyse Ternary complex crystal structure of K289M variant of DNA polymerase beta with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6NKZ
- Type
- protein + DNA
- Length
- 357 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P06746
- Ligands
- GGH, NA, MG
Structure
x-ray diffraction · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T | — | dna | 16 | — | — |
| P | — | dna | 10 | — | — |
| D | — | dna | 5 | — | — |
| A | — | protein | 326 | — | P06746 |
Ligands and binding sites
- GGH · 2'-deoxy-5'-O-(hydroxy{[hydroxy(phosphonomethyl) phosphoryl]oxy}phosphoryl)guanosine · ligand · chains T, P, A
- NA · Sodium ion · metal · 3 copies · chains P, A, D
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6NKZ · Ternary complex crystal structure of K289M variant of DNA polymerase Beta with hot-spot… · the same entry in another collection · chain T against T, TM-score 1.00
- P06746 · AlphaFold monomer V2.0 prediction for DNA polymerase beta (P06746) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P06746
- Elsewhere: RCSB PDB 6NKZ · PDBe 6NKZ · UniProt P06746
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