MolNFT v1 · #93762 · protein + DNA
DNA binding by gata transcription factor-complex 1
4HCA · Trans-acting T-cell-specific transcription factor gata-3: “DNA binding by gata transcription factor-complex 1”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.63). MolNFT v1 #93762 on GenesisL1: 3D structure…
- PDB
- 4HCA
- Type
- protein + DNA
- Length
- 139 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 0.63
Structure
x-ray diffraction · 3 distinct chains · 20% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Trans-acting T-cell-specific transcription factor gata-3 | protein | 99 | 20% helix, 8% strand | P23771 |
| X | DNA (5'- D(*AP*AP*TP*GP*TP*CP*CP*AP*TP*CP*TP*GP*AP*TP*AP*AP*GP*AP*CP*G)-3') | dna | 20 | — | — |
| Y | DNA (5'- D(*TP*TP*CP*GP*TP*CP*TP*TP*AP*TP*CP*AP*GP*AP*TP*GP*GP*AP*CP*A)-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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 366 | 0.63 | 0.79 | 42 | empty |
| 2 | 167 | 0.50 | 0.78 | 21 | empty |
| 3 | 71 | 0.37 | 0.77 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–Y · 954 Ų buried · 24 hydrogen bonds · protein-nucleic
- X–Y · 827 Ų buried · 90 hydrogen bonds · nucleic-nucleic
- A–X · 820 Ų buried · 16 hydrogen bonds · protein-nucleic
Compared structures
- 4HCA · DNA binding by GATA transcription factor-complex 1 · the same entry in another collection · chain A against A, 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 0.58
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 4HCA · PDBe 4HCA · UniProt P23771
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