MolNFT v1 · #118874 · protein + DNA
Tdg enzyme-product complex
5FF8 · G/T mismatch-specific thymine DNA glycosylase: “Tdg enzyme-product complex”. X-ray diffraction, 3 pockets (best druggability 0.69). MolNFT v1 #118874 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5FF8
- Type
- protein + DNA
- Length
- 255 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- G/T mismatch-specific thymine DNA glycosylase; DNA
- EC
- 3.2.2.29
- UniProt
- Q13569
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | G/T mismatch-specific thymine DNA glycosylase (EC 3.2.2.29) | protein | 199 | 42% helix, 12% strand | Q13569 |
| C | DNA | dna | 28 | — | — |
| D | DNA | dna | 28 | — | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 681 | 0.69 | 0.77 | 33 | empty |
| 2 | 176 | 0.68 | 0.88 | 23 | empty |
| 3 | 88 | 0.38 | 0.77 | 23 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1232 Ų buried · 126 hydrogen bonds · nucleic-nucleic
- A–D · 794 Ų buried · 25 hydrogen bonds · protein-nucleic
- A–C · 525 Ų buried · 5 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
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 Q13569
- Elsewhere: RCSB PDB 5FF8 · PDBe 5FF8 · UniProt Q13569
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