MolNFT v1 · #98593 · protein
Crystal structure of the DNA binding domain of the G245A mutant of arabidopsis thaliana auxin reponse factor 1
4LDY · Auxin response factor 1: “Crystal structure of the DNA binding domain of the G245A mutant of arabidopsis thaliana auxin reponse factor 1”. X-ray diffraction, 1 ligand (CL), 10 pockets (best druggability 0.65). MolNFT v1 #98593 on…
- PDB
- 4LDY
- Type
- protein
- Length
- 650 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Auxin response factor 1
- UniProt
- Q8L7G0
- Ligands
- CL
- Pockets
- 10 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Auxin response factor 1 | protein | 319 | 20% helix, 31% strand | Q8L7G0 |
| B | Auxin response factor 1 | protein | 331 | 21% helix, 31% strand | Q8L7G0 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 379 | 0.65 | 0.79 | 46 | empty |
| 2 | 369 | 0.65 | 0.79 | 51 | empty |
| 3 | 285 | 0.58 | 0.77 | 39 | empty |
| 4 | 294 | 0.52 | 0.75 | 38 | empty |
| 5 | 247 | 0.49 | 0.74 | 42 | empty |
Interfaces
1 interface between chains.
- A–B · 859 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 4LDY · Crystal structure of the DNA binding domain of the G245A mutant of arabidopsis thaliana… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8L7G0 · AlphaFold monomer V2.0 prediction for auxin response factor 1 (Q8L7G0) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q8L7G0
- Elsewhere: RCSB PDB 4LDY · PDBe 4LDY · UniProt Q8L7G0
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