SMTL ID : 6m4n.1

Cryo-EM structure of the dimeric SPT-ORMDL3 complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-mer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 15 residues within 4Å: Chain A: F.337, S.338, A.339 Chain B: M.237, G.238, F.239, H.263, S.265, E.315, D.344, A.346, H.347, T.376, T.378, K.379 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:A.346, B:K.379 Hydrogen bonds: B:G.238, B:F.239, B:S.265, B:H.347, B:T.376, A:A.339 Salt bridges: B:K.379 pi-Stacking: B:H.263 PLP.2: 15 residues within 4Å: Chain E: F.337, S.338, A.339 Chain F: M.237, G.238, F.239, H.263, S.265, E.315, D.344, A.346, H.347, T.376, T.378, K.379 10 PLIP interactions: 9 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:A.346, F:K.379 Hydrogen bonds: F:G.238, F:F.239, F:S.265, F:H.347, F:T.376, E:A.339 Salt bridges: F:K.379 pi-Stacking: F:H.263

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, S. et al., Structural insights into the assembly and substrate selectivity of human SPT-ORMDL3 complex. Nat.Struct.Mol.Biol. (2021)

Release Date

2021-02-10

Peptides

Serine palmitoyltransferase 1: AE
Serine palmitoyltransferase 2: BF
ORM1-like protein 3: CG
Serine palmitoyltransferase small subunit A: DH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

Membrane

We predict this structure to be a membrane protein.
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Serine palmitoyltransferase 1

Serine palmitoyltransferase 2

ORM1-like protein 3

Serine palmitoyltransferase small subunit A

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