SMTL ID : 7ky3.1

SpeG spermidine N-acetyltransferase from Staphylococcus aureus in complex with spermine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-12-mer

Ligands

12 x SPM: SPERMINE(Non-covalent)

SPM.1: 14 residues within 4Å: Chain A: L.9, F.45, H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain H: E.33, Y.35, E.36, E.40 5 PLIP interactions: 2 interactions with chain H, 3 interactions with chain A Hydrophobic interactions: H:Y.35, A:R.56 Hydrogen bonds: H:E.40, A:H.48, A:D.51 SPM.2: 15 residues within 4Å: Chain B: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain C: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:D.51, B:E.54, B:R.56, C:E.33, C:E.36 Hydrophobic interactions: C:Y.35 SPM.3: 14 residues within 4Å: Chain C: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain D: E.32, E.33, Y.35, E.36, E.40, L.44 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:Y.35 Hydrogen bonds: C:D.51 SPM.4: 14 residues within 4Å: Chain D: L.9, F.45, H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain K: E.33, Y.35, E.36, E.40 5 PLIP interactions: 2 interactions with chain K, 3 interactions with chain D Hydrophobic interactions: K:Y.35, D:R.56 Hydrogen bonds: K:E.40, D:H.48, D:D.51 SPM.5: 15 residues within 4Å: Chain E: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain F: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain F Hydrogen bonds: E:D.51, E:E.54, E:R.56, F:E.33, F:E.36 Hydrophobic interactions: F:Y.35 SPM.6: 14 residues within 4Å: Chain A: E.32, E.33, Y.35, E.36, E.40, L.44 Chain F: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain F Hydrophobic interactions: A:Y.35 Hydrogen bonds: F:D.51 SPM.7: 14 residues within 4Å: Chain B: E.33, Y.35, E.36, E.40 Chain G: L.9, F.45, H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain G Hydrophobic interactions: B:Y.35, G:R.56 Hydrogen bonds: B:E.40, G:H.48, G:D.51 SPM.8: 15 residues within 4Å: Chain H: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain I: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 7 PLIP interactions: 3 interactions with chain H, 4 interactions with chain I Hydrogen bonds: H:D.51, H:E.54, H:R.56, I:E.33, I:E.33, I:E.36 Hydrophobic interactions: I:Y.35 SPM.9: 14 residues within 4Å: Chain I: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain J: E.32, E.33, Y.35, E.36, E.40, L.44 2 PLIP interactions: 1 interactions with chain J, 1 interactions with chain I Hydrophobic interactions: J:Y.35 Hydrogen bonds: I:D.51 SPM.10: 14 residues within 4Å: Chain E: E.33, Y.35, E.36, E.40 Chain J: L.9, F.45, H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 5 PLIP interactions: 2 interactions with chain E, 3 interactions with chain J Hydrophobic interactions: E:Y.35, J:R.56 Hydrogen bonds: E:E.40, J:H.48, J:D.51 SPM.11: 15 residues within 4Å: Chain K: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 Chain L: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 7 PLIP interactions: 4 interactions with chain L, 3 interactions with chain K Hydrophobic interactions: L:Y.35 Hydrogen bonds: L:E.33, L:E.33, L:E.36, K:D.51, K:E.54, K:R.56 SPM.12: 14 residues within 4Å: Chain G: E.32, E.33, Y.35, E.36, E.40, L.44 Chain L: H.48, L.49, L.50, D.51, E.52, E.54, R.55, R.56 2 PLIP interactions: 1 interactions with chain G, 1 interactions with chain L Hydrophobic interactions: G:Y.35 Hydrogen bonds: L:D.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tsimbalyuk, S. et al., SpeG spermidine N-acetyltransferase from Staphylococcus aureus in complex with spermine. To Be Published

Release Date

2020-12-23

Peptides

Diamine N-acetyltransferase: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
B

C
A

D
C

E
B

F
A

G
C

H
B

I
A

J
C

K
B

L
A

Diamine N-acetyltransferase

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