Nf-YB/C heterodimer in complex with nf-ya-derived peptide stabilized with C8-hydrocarbon linker

Structure

x-ray diffraction · 3 distinct chains · 73% helix, 4% strand (DSSP).

Ligands and binding sites

• ACE · Acetyl group · ligand · chains A, C
• NA · Sodium ion · metal · chains A, C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Interfaces

3 interfaces between chains.

• B–C · 2566 Ų buried · 18 hydrogen bonds · protein-protein
• A–B · 408 Ų buried · 10 hydrogen bonds · protein-protein
• A–C · 330 Ų buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 modified, 1 covalent (nonstandard, covalent ligand).

Compared structures

• 6QMQ · NF-YB/C Heterodimer in Complex with NF-YA-derived Peptide Stabilized with C8-Hydrocarbon… · the same entry in another collection · chain A against A, TM-score 1.00
• Q13952 · AlphaFold monomer V2.0 prediction for nuclear transcription factor Y subunit gamma… · a predicted model of the same protein · chain C against A, TM-score 0.92
• P25208 · AlphaFold monomer V2.0 prediction for nuclear transcription factor Y subunit beta (P25208) · a predicted model of the same protein · chain B against A, TM-score 0.90
• P23511 · AlphaFold monomer V2.0 prediction for nuclear transcription factor Y subunit alpha… · a predicted model of the same protein · chain A against A, TM-score 0.75

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 P23511
• Every structure of UniProt P25208
• Every structure of UniProt Q13952
• Elsewhere: RCSB PDB 6QMQ · PDBe 6QMQ · UniProt P23511 · UniProt P25208 · UniProt Q13952