SMTL ID : 4cxm.2 (1 other biounit)

Crystal Structure of Plasmodium Falciparum Spermidine Synthase in Complex with METHYLTHIOADENOSIN AND SPERMIDINE after catalysis in crystal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x MTA: 5'-DEOXY-5'-METHYLTHIOADENOSINE(Non-covalent)

MTA.1: 22 residues within 4Å: Chain A: Q.34, L.50, Q.55, G.86, G.87, D.89, C.108, E.109, I.110, D.111, V.114, E.139, D.140, A.141, D.158, S.159, S.160, P.165, A.166, T.168, L.169 Ligands: SPD.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.34, A:G.86, A:G.87, A:G.88, A:I.110, A:D.140, A:A.141, A:S.160 MTA.3: 22 residues within 4Å: Chain B: Q.34, L.50, Q.55, G.86, G.87, D.89, C.108, E.109, I.110, D.111, V.114, E.139, D.140, A.141, D.158, S.159, S.160, P.165, A.166, T.168, L.169 Ligands: SPD.4 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Q.34, B:G.86, B:G.87, B:G.88, B:I.110, B:D.140, B:D.140, B:A.141, B:S.160

2 x SPD: SPERMIDINE(Non-covalent)

SPD.2: 13 residues within 4Å: Chain A: W.13, V.53, I.54, Q.55, Y.64, H.65, D.89, D.158, S.159, D.161, Y.226, P.227 Ligands: MTA.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.55, A:Y.226 Hydrogen bonds: A:H.65, A:D.161 Water bridges: A:G.90 SPD.4: 13 residues within 4Å: Chain B: W.13, V.53, I.54, Q.55, Y.64, H.65, D.89, D.158, S.159, D.161, Y.226, P.227 Ligands: MTA.3 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Q.55, B:Y.226 Hydrogen bonds: B:H.65, B:D.161 Water bridges: B:G.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sprenger, J. et al., Three-Dimensional Structures of Plasmodium Falciparum Spermidine Synthase with Bound Inhibitors Suggest New Strategies for Drug Design. Acta Crystallogr.,Sect.D (2015)

Release Date

2014-10-08

Peptides

SPERMIDINE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

SPERMIDINE SYNTHASE

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