MolNFT v1 · #184328 · protein + DNA
Crystal structure of kod DNA polymerase in a ternary complex with a P/T duplex containing an extended 5' single stranded template overhang
7OMB: “Crystal structure of kod DNA polymerase in a ternary complex with a P/T duplex containing an extended 5'…”. X-ray diffraction, 3 ligands (DTP, MN, MG). MolNFT v1 #184328 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7OMB
- Type
- protein + DNA
- Length
- 789 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P77933
- Ligands
- DTP, MN, MG
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 756 | — | P77933 |
| T | — | dna | 21 | — | — |
| P | — | dna | 12 | — | — |
Ligands and binding sites
- DTP · 2'-deoxyadenosine 5'-triphosphate · ligand · chains A, T, P
- MN · Manganese (II) ion · metal · 4 copies · chains A, P
- MG · Magnesium ion · metal · 2 copies · chains A, P
- EDO · 1,2-ethanediol · additive · 5 copies · chains A, T
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7OMB · Crystal structure of KOD DNA Polymerase in a ternary complex with a p/t duplex containing… · the same entry in another collection · chain A against A, TM-score 1.00
- P77933 · AlphaFold monomer V2.0 prediction for DNA polymerase (P77933) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 P77933
- Elsewhere: RCSB PDB 7OMB · PDBe 7OMB · UniProt P77933
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