PDBe 3ol2

X-ray diffraction
2.99Å resolution

Receptor-ligand structure of Human Semaphorin 4D with Plexin B1.

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Semaphorin-4D Chain: A
Molecule details ›
Chain: A
Length: 663 amino acids
Theoretical weight: 74.32 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q92854 (Residues: 22-677; Coverage: 78%)
Gene names: C9orf164, CD100, SEMA4D, SEMAJ
Sequence domains:
Structure domains:
Plexin-B1 Chain: B
Molecule details ›
Chain: B
Length: 528 amino acids
Theoretical weight: 56.92 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O43157 (Residues: 19-535; Coverage: 24%)
Gene names: KIAA0407, PLXN5, PLXNB1, SEP
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: F222
Unit cell:
a: 83.055Å b: 173.436Å c: 482.119Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.19 0.237
Expression system: Homo sapiens