MolNFT v1 · #124453 · protein + DNA
Human DNA polymerase eta-DNA ternary complex with sp-datp-alpha-S: reaction with 20 mm MG2+ for 600S
5KFP: “Human DNA polymerase eta-DNA ternary complex with sp-datp-alpha-S: reaction with 20 mm MG2+ for 600S”. X-ray diffraction, 4 ligands (STP, DPO, MG). MolNFT v1 #124453 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5KFP
- Type
- protein + DNA
- Length
- 450 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9Y253
- Ligands
- STP, DPO, MG, CA
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 430 | — | Q9Y253 |
| T | — | dna | 11 | — | — |
| P | — | dna | 9 | — | — |
Ligands and binding sites
- STP · 2'-deoxyadenosine 5'-O-(1-thiotriphosphate) · ligand · chains A, T, P
- DPO · Diphosphate · ligand · chains A, P
- MG · Magnesium ion · metal · 3 copies · chains A, P
- CA · Calcium ion · metal · chains A, P
- GOL · Glycerol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5KFP · Human DNA polymerase eta-DNA ternary complex with Sp-dATP-alpha-S: reaction with 20 mM… · the same entry in another collection · chain T against T, 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 Q9Y253
- Elsewhere: RCSB PDB 5KFP · PDBe 5KFP · UniProt Q9Y253
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