SMTL ID : 7k0q.1

Human serine palmitoyltransferase complex SPTLC1/SPLTC2/ssSPTa/ORMDL3, myriocin-bound

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.1: 15 residues within 4Å: Chain A: 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 Ligands: VRP.2 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:H.263, B:A.346 Hydrogen bonds: B:G.238, B:F.239, B:N.242, B:S.265, B:T.378, B:K.379, A:A.339 Salt bridges: B:K.379 pi-Stacking: B:H.263

1 x VRP: Myriocin(Non-covalent)

VRP.2: 20 residues within 4Å: Chain A: P.135, F.138, C.336, F.337 Chain B: Y.78, Y.122, L.126, Y.127, I.130, W.134, Y.176, H.263, S.319, H.347, K.379, V.496, G.497, P.499, R.509 Ligands: PLP.1 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.126, B:Y.127, B:I.130, B:W.134, A:F.138, A:F.138, A:F.138, A:F.337 Hydrogen bonds: B:H.263, B:S.319, B:S.319, B:K.379, B:G.497 Salt bridges: B:H.347, B:K.379, B:R.509

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., Structural insights into the regulation of human serine palmitoyltransferase complexes. Nat.Struct.Mol.Biol. (2021)

Release Date

2021-02-24

Peptides

Serine palmitoyltransferase 1: A
Serine palmitoyltransferase 2: B
Serine palmitoyltransferase small subunit A: C
ORM1-like protein 3: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

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

Serine palmitoyltransferase 2

Serine palmitoyltransferase small subunit A

ORM1-like protein 3

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