MolNFT v1 · #149117 · protein + DNA
Crystal structure of tale homeobox domain transcription factor TGIF1 double alanine mutant bound to its consensus DNA
6FQQ · Homeobox protein TGIF1: “Crystal structure of tale homeobox domain transcription factor TGIF1 double alanine mutant bound to its…”. X-ray diffraction, 1 ligand (CL), 4 pockets (best druggability 0.58). MolNFT v1 #149117 on…
- PDB
- 6FQQ
- Type
- protein + DNA
- Length
- 309 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Homeobox protein TGIF1; DNA (5'- D(P*AP*TP*TP*GP*AP*CP*AP*GP*CP*TP*GP*TP*CP*AP*AP*T)-3')
- UniProt
- Q15583
- Ligands
- CL
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 4 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Homeobox protein TGIF1 | protein | 60 | 72% helix, 0% strand | Q15583 |
| L, M, G, H | DNA (5'- D(P*AP*TP*TP*GP*AP*CP*AP*GP*CP*TP*GP*TP*CP*AP*AP*T)-3') | dna | 16 | — | — |
| B, E | Homeobox protein TGIF1 | protein | 61 | 70% helix, 0% strand | Q15583 |
| D | Homeobox protein TGIF1 | protein | 63 | 68% helix, 0% strand | Q15583 |
Ligands and binding sites
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 279 | 0.58 | 0.78 | 21 | empty |
| 2 | 227 | 0.54 | 0.78 | 19 | empty |
| 3 | 61 | 0.31 | 0.76 | 15 | empty |
| 4 | 52 | 0.30 | 0.76 | 13 | empty |
Interfaces
11 interfaces between chains.
- G–H · 705 Ų buried · 76 hydrogen bonds · nucleic-nucleic
- L–M · 696 Ų buried · 71 hydrogen bonds · nucleic-nucleic
- G–E · 426 Ų buried · 12 hydrogen bonds · protein-nucleic
- G–D · 418 Ų buried · 5 hydrogen bonds · protein-nucleic
- H–E · 408 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 6FQQ · Crystal structure of TALE homeobox domain transcription factor TGIF1 double alanine… · the same entry in another collection · chain E against E, TM-score 1.00
- Q15583 · AlphaFold monomer V2.0 prediction for homeobox protein TGIF1 (Q15583) · a predicted model of the same protein · chain D against A, TM-score 0.96
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 Q15583
- Elsewhere: RCSB PDB 6FQQ · PDBe 6FQQ · UniProt Q15583
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