SMTL ID : 3mau.1 (1 other biounit)

Crystal structure of StSPL in complex with phosphoethanolamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

1 x PLR: (5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE(Non-covalent)

PLR.1: 14 residues within 4Å: Chain A: G.168, G.169, T.170, L.173, H.202, P.248, Y.250, D.275, C.277, L.278, D.309, H.311 Chain B: G.353, S.354 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.250, A:L.278 Hydrogen bonds: A:G.169, A:T.170, A:T.170, A:T.170, A:D.309, B:G.353, B:S.354 Salt bridges: A:H.311 pi-Stacking: A:H.202

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 7 residues within 4Å: Chain A: A.104, Y.106, K.318 Chain B: N.127, L.129, H.130, S.354 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.127, B:S.354, A:A.104 Salt bridges: B:H.130, A:K.318

1 x EXT: {5-hydroxy-6-methyl-4-[(E)-{[2-(phosphonooxy)ethyl]imino}methyl]pyridin-3-yl}methyl dihydrogen phosphate(Non-covalent)

EXT.3: 19 residues within 4Å: Chain A: N.127, L.129, H.130, G.353, S.354 Chain B: A.104, Y.106, G.168, G.169, T.170, H.202, P.248, Y.250, D.275, C.277, L.278, D.309, H.311, K.318 16 PLIP interactions: 10 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:Y.250 Hydrogen bonds: B:A.104, B:Y.106, B:Y.106, B:Y.106, B:G.169, B:T.170, A:N.127, A:G.353, A:S.354, A:S.354, A:S.354 Salt bridges: B:H.311, B:K.318, A:H.130 pi-Stacking: B:H.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bourquin, F. et al., Structure and Function of Sphingosine-1-Phosphate Lyase, a Key Enzyme of Sphingolipid Metabolism. Structure (2010)

Release Date

2010-08-18

Peptides

sphingosine-1-phosphate lyase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

sphingosine-1-phosphate lyase

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