MolNFT v1 · #157842 · protein + DNA
Crystal structure of the human FOXN3 DNA binding domain in complex with a forkhead DNA sequence
6NCE · Forkhead box protein N3: “Crystal structure of the human FOXN3 DNA binding domain in complex with a forkhead DNA sequence”. X-ray diffraction, 1 ligand (MG), 2 pockets (best druggability 0.61). MolNFT v1 #157842 on GenesisL1: 3D…
- PDB
- 6NCE
- Type
- protein + DNA
- Length
- 121 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Forkhead box protein N3; DNA (5'-D(*TP*CP*TP*TP*AP*AP*GP*TP*AP*AP*AP*CP*AP*AP*TP*G)- 3')…
- UniProt
- O00409
- Ligands
- MG
- Pockets
- 2 · best druggability 0.61
Structure
x-ray diffraction · 3 distinct chains · 53% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Forkhead box protein N3 | protein | 89 | 53% helix, 11% strand | O00409 |
| C | DNA (5'-D(*TP*CP*TP*TP*AP*AP*GP*TP*AP*AP*AP*CP*AP*AP*TP*G)- 3') | dna | 16 | — | — |
| D | DNA (5'-D(*AP*CP*AP*TP*TP*GP*TP*TP*TP*AP*CP*TP*TP*AP*AP*G)- 3') | dna | 16 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 378 | 0.61 | 0.77 | 46 | GOL, MG |
| 2 | 61 | 0.28 | 0.74 | 11 | empty |
Interfaces
3 interfaces between chains.
- C–D · 682 Ų buried · 55 hydrogen bonds · nucleic-nucleic
- A–D · 465 Ų buried · 9 hydrogen bonds · protein-nucleic
- A–C · 361 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 6NCE · Crystal structure of the human FOXN3 DNA binding domain in complex with a forkhead DNA… · the same entry in another collection · chain A against A, TM-score 1.00
- O00409 · AlphaFold monomer V2.0 prediction for forkhead box protein N3 (O00409) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 O00409
- Elsewhere: RCSB PDB 6NCE · PDBe 6NCE · UniProt O00409
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