SMTL ID : 8fv1.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

homo-12-mer

Ligands

12 x SPM: SPERMINE(Non-covalent)

SPM.1: 13 residues within 4Å: Chain A: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain B: N.21, E.32, E.33, Y.35, E.36, E.40 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.35 Hydrogen bonds: B:E.32, B:E.32, A:E.54 SPM.2: 14 residues within 4Å: Chain A: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 Chain F: H.48, L.49, L.50, D.51, E.52, E.54, R.55 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain F Hydrophobic interactions: A:Y.35, A:Y.35 Hydrogen bonds: A:N.21, A:E.36, F:H.48, F:E.54 SPM.3: 15 residues within 4Å: Chain C: N.21, M.27, W.30, E.32, E.33, Y.35, E.36, E.40 Chain L: H.48, L.49, L.50, D.51, E.52, E.54, R.55 8 PLIP interactions: 1 interactions with chain L, 7 interactions with chain C Hydrogen bonds: L:H.48, C:E.32, C:E.32, C:E.32, C:E.33, C:Y.35 Hydrophobic interactions: C:N.21, C:Y.35 SPM.4: 13 residues within 4Å: Chain C: H.48, L.49, D.51, E.52, E.54, R.55 Chain D: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:Y.35, D:Y.35 Hydrogen bonds: D:E.32, C:E.54 SPM.5: 13 residues within 4Å: Chain E: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain F: N.21, E.32, E.33, Y.35, E.36, E.40 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:Y.35 Hydrogen bonds: F:E.32, F:E.32, E:E.54 SPM.6: 14 residues within 4Å: Chain E: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 Chain J: H.48, L.49, L.50, D.51, E.52, E.54, R.55 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain J Hydrophobic interactions: E:Y.35, E:Y.35 Hydrogen bonds: E:N.21, E:E.36, J:H.48 SPM.7: 15 residues within 4Å: Chain D: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain G: N.21, M.27, W.30, E.32, E.33, Y.35, E.36, E.40 8 PLIP interactions: 1 interactions with chain D, 7 interactions with chain G Hydrogen bonds: D:H.48, G:E.32, G:E.32, G:E.32, G:E.33, G:Y.35 Hydrophobic interactions: G:N.21, G:Y.35 SPM.8: 13 residues within 4Å: Chain G: H.48, L.49, D.51, E.52, E.54, R.55 Chain H: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 4 PLIP interactions: 1 interactions with chain G, 3 interactions with chain H Hydrogen bonds: G:E.54, H:E.32 Hydrophobic interactions: H:Y.35, H:Y.35 SPM.9: 13 residues within 4Å: Chain I: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain J: N.21, E.32, E.33, Y.35, E.36, E.40 4 PLIP interactions: 1 interactions with chain I, 3 interactions with chain J Hydrogen bonds: I:E.54, J:E.32, J:E.32 Hydrophobic interactions: J:Y.35 SPM.10: 14 residues within 4Å: Chain B: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain I: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 6 PLIP interactions: 4 interactions with chain I, 2 interactions with chain B Hydrophobic interactions: I:Y.35, I:Y.35 Hydrogen bonds: I:N.21, I:E.36, B:H.48, B:E.54 SPM.11: 15 residues within 4Å: Chain H: H.48, L.49, L.50, D.51, E.52, E.54, R.55 Chain K: N.21, M.27, W.30, E.32, E.33, Y.35, E.36, E.40 7 PLIP interactions: 6 interactions with chain K, 1 interactions with chain H Hydrophobic interactions: K:N.21, K:Y.35 Hydrogen bonds: K:E.32, K:E.32, K:E.33, K:Y.35, H:H.48 SPM.12: 13 residues within 4Å: Chain K: H.48, L.49, D.51, E.52, E.54, R.55 Chain L: N.21, M.27, E.32, E.33, Y.35, E.36, E.40 5 PLIP interactions: 2 interactions with chain K, 3 interactions with chain L Hydrogen bonds: K:E.54, K:E.54, L:E.32 Hydrophobic interactions: L:Y.35, L:Y.35

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, crystal form II. To Be Published

Release Date

2023-02-08

Peptides

Diamine N-acetyltransferase: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

C
B

D
D

E
C

F
A

G
B

H
D

I
C

J
A

K
B

L
D

Diamine N-acetyltransferase

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