MolNFT v1 · #119702 · protein
Crystal structure of the arabodopsis thaliana histone-fold dimer L1L nf-YC3
5G49 · Nuclear transcription factor Y subunit B-6: “Crystal structure of the arabodopsis thaliana histone-fold dimer L1L nf-YC3”. X-ray diffraction, 1 ligand (CA), 2 pockets (best druggability 0.52). MolNFT v1 #119702 on GenesisL1: 3D…
- PDB
- 5G49
- Type
- protein
- Length
- 191 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear transcription factor Y subunit B-6; Nuclear transcription factor Y subunit C-3
- UniProt
- Q84W66, Q9ZVL3
- Ligands
- CA
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 62% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclear transcription factor Y subunit B-6 | protein | 97 | 69% helix, 4% strand | Q84W66 |
| B | Nuclear transcription factor Y subunit C-3 | protein | 94 | 55% helix, 4% strand | Q9ZVL3 |
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 | 223 | 0.52 | 0.76 | 29 | ACT |
| 2 | 50 | 0.27 | 0.74 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 2666 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 5G49 · Crystal structure of the Arabodopsis thaliana histone-fold dimer L1L NF-YC3 · the same entry in another collection · chain A against A, TM-score 1.00
- Q84W66 · AlphaFold monomer V2.0 prediction for nuclear transcription factor Y subunit B-6 (Q84W66) · a predicted model of the same protein · chain A against A, TM-score 0.90
- Q9ZVL3 · AlphaFold monomer V2.0 prediction for nuclear transcription factor Y subunit C-3 (Q9ZVL3) · a predicted model of the same protein · chain B against A, TM-score 0.88
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 Q84W66
- Every structure of UniProt Q9ZVL3
- Elsewhere: RCSB PDB 5G49 · PDBe 5G49 · UniProt Q84W66 · UniProt Q9ZVL3
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