MolNFT v2 · #153661 · protein + DNA
Post-catalytic Complex of Human DNA Polymerase Mu with Templating Adenine and Mn-8oxodGMP
6IPD: “Post-catalytic Complex of Human DNA Polymerase Mu with Templating Adenine and Mn-8oxodGMP”. X-ray diffraction at 1.7, 3 ligands (OXD, MN, NA). MolNFT v2 #153661 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6IPD
- Type
- protein + DNA
- Length
- 344 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.7
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- UniProt
- Q9NP87
- Ligands
- OXD, MN, NA
Structure
x-ray diffraction · resolution 1.7 · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 326 | — | Q9NP87 |
| T | — | dna | 9 | — | — |
| P | — | dna | 5 | — | — |
| D | — | dna | 4 | — | — |
Ligands and binding sites
- OXD · Oxalic acid · ligand · chains A, P
- MN · Manganese (II) ion · metal · 2 copies · chains A, P
- NA · Sodium ion · metal · 2 copies · chains A, P
- EDO · 1,2-ethanediol · additive · 3 copies · chains A, P
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6IPD · Post-catalytic complex of human DNA polymerase mu with templating adenine and mn-8OXODGMP · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NP87 · AlphaFold monomer V2.0 prediction for DNA-directed DNA/RNA polymerase mu (Q9NP87) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q9NP87
- Elsewhere: RCSB PDB 6IPD · PDBe 6IPD · UniProt Q9NP87
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