› 4ui2

X-ray diffraction
3.15Å resolution

Crystal structure of the ternary RGMB-BMP2-NEO1 complex

Released:
DOI: 10.2210/pdb4ui2/pdb
PDB 4ui2 coloured by chain and viewed from the front.
PDB 4ui2 coloured by chain and viewed from the side.
PDB 4ui2 coloured by chain and viewed from the top.
Source organism: Homo sapiens
Primary publication:
Repulsive guidance molecule is a structural bridge between neogenin and bone morphogenetic protein.
Healey EG, Bishop B, Elegheert J, Bell CH, Padilla-Parra S, Siebold C
OpenAccess logo Nat Struct Mol Biol 22 458-65 (2015)
PMID: 25938661

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Neogenin Chain: A
Molecule details ›
Chain: A
Length: 264 amino acids
Theoretical weight: 29.22 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q92859 (Residues: 852-1102; Coverage: 18%)
Gene names: IGDCC2, NEO1, NGN
Sequence domains: Fibronectin type III domain
Structure domains: Immunoglobulins
Bone morphogenetic protein 2 Chain: B
Molecule details ›
Chain: B
Length: 114 amino acids
Theoretical weight: 12.92 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P12643 (Residues: 283-396; Coverage: 31%)
Gene names: BMP2, BMP2A
Sequence domains: Transforming growth factor beta like domain
Structure domains: Cystine-knot cytokines
Repulsive guidance molecule B Chain: C
Molecule details ›
Chain: C
Length: 122 amino acids
Theoretical weight: 13.32 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6NW40 (Residues: 50-168; Coverage: 30%)
Gene name: RGMB
Repulsive guidance molecule B Chain: D
Molecule details ›
Chain: D
Length: 251 amino acids
Theoretical weight: 27.95 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6NW40 (Residues: 169-410; Coverage: 62%)
Gene name: RGMB
Sequence domains: Repulsive guidance molecule (RGM) C-terminus
Structure domains: Mog1/PsbP, alpha/beta/alpha sandwich

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
2 bound ligands:
Ligand SRT 3 x SRT
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P43212
Unit cell:
a: 120.08Å b: 120.08Å c: 204.09Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.196 0.236
Expression systems:
  • Homo sapiens
  • Escherichia coli BL21(DE3)

Quick links

Citations

10 review citations

Structural perspective of BMP ligands and signaling.
Gipson et al. (2020)
9 more