Green-fluorescent variant of the non-fluorescent chromoprotein RTMS5

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 57% strand (DSSP).

Ligands and binding sites

• QFG · {(4E)-2-[(1E)-4-amino-4-oxobutanimidoyl]-4-benzylidene-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid · ligand · 8 copies · chains A, B, C, D, E, F, G, H
• CL · Chloride ion · ion · 16 copies · chains A, C, B, D, E, G, F, H
• IOD · Iodide ion · ion · 8 copies · chains A, E, B, C, D, H

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

Pockets

20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.

Interfaces

9 interfaces between chains.

• A–B · 1286 Ų buried · 17 hydrogen bonds · protein-protein
• C–D · 1285 Ų buried · 12 hydrogen bonds · protein-protein
• G–H · 1279 Ų buried · 13 hydrogen bonds · protein-protein
• E–F · 1275 Ų buried · 13 hydrogen bonds · protein-protein
• F–H · 875 Ų buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 16 covalent (covalent ligand).

Compared structures

• 3VIC · Green-fluorescent variant of the non-fluorescent chromoprotein Rtms5 · the same entry in another collection · chain H against H, TM-score 1.00
• P83690 · AlphaFold monomer V2.0 prediction for GFP-like non-fluorescent chromoprotein (P83690) · a predicted model of the same protein · chain A against A, TM-score 1.00

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 P83690
• Elsewhere: RCSB PDB 3VIC · PDBe 3VIC · UniProt P83690