SMTL ID : 4r57.3 (2 other biounits)

Crystal structure of spermidine N-acetyltransferase from Vibrio cholerae in complex with acetyl-CoA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-12-mer

Ligands

12 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.1: 21 residues within 4Å: Chain A: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, K.132, L.136, Y.137 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.33, A:I.90, A:I.92, A:L.124, A:Y.137 Hydrogen bonds: A:I.90, A:I.90, A:I.92, A:G.98, A:K.99, A:G.100, A:A.102, A:N.130, A:Y.137 Salt bridges: A:R.103 ACO.2: 20 residues within 4Å: Chain B: Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, H.135, Y.137, E.139 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Q.89, B:I.92 Hydrogen bonds: B:I.90, B:I.90, B:I.92, B:G.98, B:K.99, B:G.100, B:F.101, B:A.102, B:N.130, B:K.132, B:E.139 Salt bridges: B:R.103, B:H.135 ACO.3: 23 residues within 4Å: Chain C: I.30, Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, A.133, H.135, L.136, Y.137, E.139 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:Y.33, C:Q.89, C:I.92, C:A.133 Hydrogen bonds: C:I.90, C:I.90, C:I.92, C:Q.97, C:G.98, C:G.98, C:G.100, C:A.102, C:N.130, C:K.132, C:K.132, C:E.139 Salt bridges: C:R.103, C:H.135 ACO.4: 20 residues within 4Å: Chain D: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, Y.137, E.139 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:Y.33, D:I.92, D:L.124 Hydrogen bonds: D:I.90, D:I.90, D:I.92, D:G.98, D:K.99, D:G.100, D:G.100, D:A.102, D:R.103, D:N.130, D:E.139 Salt bridges: D:R.103 ACO.5: 21 residues within 4Å: Chain E: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, K.132, L.136, Y.137 15 PLIP interactions: 15 interactions with chain E Hydrophobic interactions: E:Y.33, E:I.90, E:I.92, E:L.124, E:Y.137 Hydrogen bonds: E:I.90, E:I.90, E:I.92, E:G.98, E:K.99, E:G.100, E:A.102, E:N.130, E:Y.137 Salt bridges: E:R.103 ACO.6: 20 residues within 4Å: Chain F: Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, H.135, Y.137, E.139 14 PLIP interactions: 14 interactions with chain F Hydrophobic interactions: F:Q.89, F:I.92 Hydrogen bonds: F:I.90, F:I.92, F:G.98, F:K.99, F:G.100, F:F.101, F:A.102, F:N.130, F:K.132, F:E.139 Salt bridges: F:R.103, F:H.135 ACO.7: 23 residues within 4Å: Chain G: I.30, Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, A.133, H.135, L.136, Y.137, E.139 18 PLIP interactions: 18 interactions with chain G Hydrophobic interactions: G:Y.33, G:Q.89, G:I.92, G:A.133 Hydrogen bonds: G:I.90, G:I.90, G:I.92, G:Q.97, G:G.98, G:G.98, G:G.100, G:A.102, G:N.130, G:K.132, G:K.132, G:E.139 Salt bridges: G:R.103, G:H.135 ACO.8: 20 residues within 4Å: Chain H: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, Y.137, E.139 15 PLIP interactions: 15 interactions with chain H Hydrophobic interactions: H:Y.33, H:I.92, H:L.124 Hydrogen bonds: H:I.90, H:I.90, H:I.92, H:G.98, H:K.99, H:G.100, H:G.100, H:A.102, H:R.103, H:N.130, H:E.139 Salt bridges: H:R.103 ACO.9: 21 residues within 4Å: Chain I: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, K.132, L.136, Y.137 15 PLIP interactions: 15 interactions with chain I Hydrophobic interactions: I:Y.33, I:I.90, I:I.92, I:L.124, I:Y.137 Hydrogen bonds: I:I.90, I:I.90, I:I.92, I:G.98, I:K.99, I:G.100, I:A.102, I:N.130, I:Y.137 Salt bridges: I:R.103 ACO.10: 20 residues within 4Å: Chain J: Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, H.135, Y.137, E.139 14 PLIP interactions: 14 interactions with chain J Hydrophobic interactions: J:Q.89, J:I.92 Hydrogen bonds: J:I.90, J:I.92, J:G.98, J:K.99, J:G.100, J:F.101, J:A.102, J:N.130, J:K.132, J:E.139 Salt bridges: J:R.103, J:H.135 ACO.11: 23 residues within 4Å: Chain K: I.30, Y.33, W.34, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, H.125, V.126, N.130, K.132, A.133, H.135, L.136, Y.137, E.139 18 PLIP interactions: 18 interactions with chain K Hydrophobic interactions: K:Y.33, K:Q.89, K:I.92, K:A.133 Hydrogen bonds: K:I.90, K:I.90, K:I.92, K:Q.97, K:G.98, K:G.98, K:G.100, K:A.102, K:N.130, K:K.132, K:K.132, K:E.139 Salt bridges: K:R.103, K:H.135 ACO.12: 20 residues within 4Å: Chain L: I.30, Y.33, W.34, F.88, Q.89, I.90, I.91, I.92, Q.97, G.98, K.99, G.100, F.101, A.102, R.103, L.124, H.125, N.130, Y.137, E.139 15 PLIP interactions: 15 interactions with chain L Hydrophobic interactions: L:Y.33, L:I.92, L:L.124 Hydrogen bonds: L:I.90, L:I.90, L:I.92, L:G.98, L:K.99, L:G.100, L:G.100, L:A.102, L:R.103, L:N.130, L:E.139 Salt bridges: L:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Filippova, E.V. et al., A Novel Polyamine Allosteric Site of SpeG from Vibrio cholerae Is Revealed by Its Dodecameric Structure. J.Mol.Biol. (2015)

Release Date

2015-03-25

Peptides

Spermidine n1-acetyltransferase: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

E
I

F
J

G
K

H
L

I
I

J
J

K
K

L
L

Spermidine n1-acetyltransferase

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