MolNFT v1 · #93761 · protein + DNA
DNA binding by gata transcription factor-complex 3
4HC9 · Trans-acting T-cell-specific transcription factor gata-3: “DNA binding by gata transcription factor-complex 3”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.48). MolNFT v1 #93761 on GenesisL1: 3D structure…
- PDB
- 4HC9
- Type
- protein + DNA
- Length
- 145 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Trans-acting T-cell-specific transcription factor gata-3; DNA (5'…
- UniProt
- P23771
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 22% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Trans-acting T-cell-specific transcription factor gata-3 | protein | 105 | 22% helix, 8% strand | P23771 |
| Y | DNA (5'- D(*TP*TP*CP*CP*TP*AP*AP*AP*TP*CP*AP*GP*AP*GP*AP*TP*AP*AP*CP*C)-3') | dna | 20 | — | — |
| Z | DNA (5'- D(*AP*AP*GP*GP*TP*TP*AP*TP*CP*TP*CP*TP*GP*AP*TP*TP*TP*AP*GP*G)-3') | dna | 20 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 122 | 0.48 | 0.80 | 21 | empty |
| 2 | 103 | 0.42 | 0.77 | 18 | empty |
| 3 | 95 | 0.35 | 0.75 | 17 | empty |
Interfaces
3 interfaces between chains.
- Y–Z · 805 Ų buried · 64 hydrogen bonds · nucleic-nucleic
- A–Y · 313 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–Z · 309 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 4HC9 · DNA binding by GATA transcription factor-complex 3 · the same entry in another collection · chain Y against Y, TM-score 1.00
- P23771 · AlphaFold monomer V2.0 prediction for trans-acting T-cell-specific transcription factor… · a predicted model of the same protein · chain A against A, TM-score 0.87
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 P23771
- Elsewhere: RCSB PDB 4HC9 · PDBe 4HC9 · UniProt P23771
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