6m4o

Electron Microscopy
3.4Å resolution

Cryo-EM structure of the monomeric SPT-ORMDL3 complex

Released:
Source organism: Homo sapiens
Primary publication:
Structural insights into the assembly and substrate selectivity of human SPT-ORMDL3 complex.
Nat Struct Mol Biol 28 249-257 (2021)
PMID: 33558762
Related structures: EMD-30080

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-127403 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Serine palmitoyltransferase 1 Chains: B, S
Molecule details ›
Chains: B, S
Length: 473 amino acids
Theoretical weight: 52.81 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O15269 (Residues: 1-473; Coverage: 100%)
Gene names: LCB1, SPTLC1
Sequence domains: Aminotransferase class I and II
Serine palmitoyltransferase 2 Chain: T
Molecule details ›
Chain: T
Length: 562 amino acids
Theoretical weight: 63 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O15270 (Residues: 1-562; Coverage: 100%)
Gene names: KIAA0526, LCB2, SPTLC2
Sequence domains: Aminotransferase class I and II
ORM1-like protein 3 Chain: A
Molecule details ›
Chain: A
Length: 153 amino acids
Theoretical weight: 17.51 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q8N138 (Residues: 1-153; Coverage: 100%)
Gene name: ORMDL3
Sequence domains: ORMDL family
Serine palmitoyltransferase small subunit A Chain: E
Molecule details ›
Chain: E
Length: 92 amino acids
Theoretical weight: 10.74 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q969W0 (Residues: 1-71; Coverage: 100%)
Gene names: C14orf147, SPTSSA, SSSPTA
Sequence domains: Small subunit of serine palmitoyltransferase-like

Ligands and Environments


Cofactor: Ligand PLP 1 x PLP
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.4Å
Relevant EMDB volumes: EMD-30080
Expression system: Homo sapiens