MolNFT v1 · #182831 · protein + DNA
ZBTB7A zinc finger domain bound to DNA duplex containing ggaccc (oligo 20)
7N5V · Zinc finger and btb domain-containing protein 7A: “ZBTB7A zinc finger domain bound to DNA duplex containing ggaccc (oligo 20)”. X-ray diffraction, 1 ligand (ZN), 10 pockets (best druggability 0.78). MolNFT v1 #182831 on GenesisL1…
- PDB
- 7N5V
- Type
- protein + DNA
- Length
- 321 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Zinc finger and btb domain-containing protein 7A; DNA strand I; DNA strand II
- UniProt
- O95365
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 37% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, F | Zinc finger and btb domain-containing protein 7A | protein | 56 | 34% helix, 11% strand | O95365 |
| B | Zinc finger and btb domain-containing protein 7A | protein | 113 | 39% helix, 14% strand | O95365 |
| X, H, D | DNA strand I | dna | 16 | — | — |
| Y, I, E | DNA strand II | dna | 16 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, B, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 162 | 0.78 | 0.95 | 27 | empty |
| 2 | 102 | 0.76 | 0.97 | 18 | empty |
| 3 | 759 | 0.68 | 0.76 | 68 | empty |
| 4 | 61 | 0.61 | 0.91 | 20 | empty |
| 5 | 52 | 0.60 | 0.93 | 14 | empty |
Interfaces
22 interfaces between chains.
- X–Y · 699 Ų buried · 60 hydrogen bonds · nucleic-nucleic
- D–E · 696 Ų buried · 70 hydrogen bonds · nucleic-nucleic
- H–I · 695 Ų buried · 59 hydrogen bonds · nucleic-nucleic
- B–D · 640 Ų buried · 16 hydrogen bonds · protein-nucleic
- A–X · 483 Ų buried · 12 hydrogen bonds · protein-nucleic
Compared structures
- 7N5V · ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing GGACCC (Oligo 20) · the same entry in another collection · chain E against E, TM-score 1.00
- O95365 · AlphaFold monomer V2.0 prediction for zinc finger and btb domain- containing protein 7A… · a predicted model of the same protein · chain A against A, TM-score 0.77
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 O95365
- Elsewhere: RCSB PDB 7N5V · PDBe 7N5V · UniProt O95365
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