Crystal structure of the human rgmb-BMP2 complex, crystal form 2

Structure

x-ray diffraction · 3 distinct chains · 26% helix, 36% strand (DSSP).

Ligands and binding sites

• CL · Chloride ion · ion · chains A, B
• MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains A
• FLC · Citrate anion · additive · chains A

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.

• A–B · 1316 Ų buried · 8 hydrogen bonds · protein-protein
• B–C · 473 Ų buried · 1 hydrogen bond · protein-protein
• A–C · 443 Ų buried · 3 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 10 disulfide (disulfide).

Compared structures

• 4UI0 · Crystal structure of the human RGMB-BMP2 complex, crystal form 2 · the same entry in another collection · chain A against A, TM-score 1.00
• Q6NW40 · AlphaFold monomer V2.0 prediction for rgm domain family member B (Q6NW40) · a predicted model of the same protein · chain C against A, TM-score 0.96
• P12643 · AlphaFold monomer V2.0 prediction for bone morphogenetic protein 2 (P12643) · a predicted model of the same protein · chain A against A, TM-score 0.93

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 P12643
• Every structure of UniProt Q6NW40
• Elsewhere: RCSB PDB 4UI0 · PDBe 4UI0 · UniProt P12643 · UniProt Q6NW40