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

Chasing Acyl Carrier Protein Through a Catalytic Cycle of Lipid A Production

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-oligomer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.2: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

6 x 1F7: S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] (3R)-3-hydroxytetradecanethioate(Covalent)

1F7.3: 20 residues within 4Å: Chain D: D.239, G.258, G.276, T.293, G.294 Chain E: F.190, Q.243, A.245, I.261, A.263, G.264, V.279, N.281, M.297, V.298, M.299 Chain F: N.317, W.320, R.321 Chain G: S.39 21 PLIP interactions: 2 interactions with chain G, 15 interactions with chain E, 2 interactions with chain D, 2 interactions with chain F Hydrogen bonds: G:S.39, E:D.223, E:D.223, E:Q.243, E:G.264, E:N.281, F:N.317 Water bridges: G:S.39, E:F.190, E:N.281, E:N.281, E:G.282, D:G.294 Hydrophobic interactions: E:F.190, E:I.261, E:A.263, E:V.279, E:N.281, E:M.299, D:T.293 Salt bridges: F:R.321 1F7.4: 23 residues within 4Å: Chain D: F.190, Q.243, A.245, I.261, A.263, G.264, V.279, I.280, N.281, M.297, V.298, M.299 Chain E: N.317, W.320, R.321 Chain F: D.239, A.257, G.258, G.275, G.276, T.293, G.294 Chain H: S.39 13 PLIP interactions: 2 interactions with chain F, 9 interactions with chain D, 2 interactions with chain E Hydrogen bonds: F:G.276, F:G.294, D:Q.243, D:G.264, E:N.317 Hydrophobic interactions: D:F.190, D:I.261, D:V.279 Water bridges: D:F.190, D:D.223, D:N.281, D:N.281 Salt bridges: E:R.321 1F7.5: 23 residues within 4Å: Chain A: N.317, W.320, R.321 Chain B: D.239, A.257, G.258, G.275, G.276, T.293, G.294 Chain C: F.190, Q.243, A.245, I.261, M.262, A.263, G.264, V.279, N.281, M.297, V.298, M.299 Chain I: S.39 14 PLIP interactions: 8 interactions with chain C, 3 interactions with chain B, 2 interactions with chain A, 1 interactions with chain I Hydrophobic interactions: C:F.190, C:A.263, C:V.279, B:T.293 Hydrogen bonds: C:Q.243, C:G.264, C:N.281, B:G.276, B:G.294, A:N.317, I:S.39 Water bridges: C:F.190, C:D.223 Salt bridges: A:R.321 1F7.6: 22 residues within 4Å: Chain A: D.239, A.257, G.258, G.275, G.276, T.293, G.294 Chain B: F.190, Q.243, A.245, I.261, A.263, G.264, V.279, N.281, M.297, V.298, M.299 Chain C: N.317, W.320, R.321 Chain J: S.39 14 PLIP interactions: 3 interactions with chain A, 6 interactions with chain B, 4 interactions with chain C, 1 interactions with chain J Hydrophobic interactions: A:T.293, B:F.190, B:I.261 Hydrogen bonds: A:G.276, A:G.294, B:Q.243, B:G.264, C:N.317, J:S.39 Water bridges: B:F.190, B:D.223, C:N.317, C:R.321 Salt bridges: C:R.321 1F7.7: 21 residues within 4Å: Chain D: N.317, W.320, R.321 Chain E: D.239, A.257, G.258, G.275, G.276, T.293, G.294 Chain F: F.190, Q.243, A.245, I.261, A.263, G.264, V.279, N.281, M.297, M.299 Chain K: S.39 15 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D, 11 interactions with chain F Hydrogen bonds: E:G.276, E:G.294, D:N.317, F:Q.243, F:G.264, F:N.281 Salt bridges: D:R.321 Hydrophobic interactions: F:F.190, F:A.263, F:V.279, F:N.281, F:M.299 Water bridges: F:F.190, F:D.223, F:N.281 1F7.8: 23 residues within 4Å: Chain A: F.190, Q.243, A.245, I.261, A.263, G.264, V.279, I.280, N.281, M.297, V.298, M.299 Chain B: N.317, W.320, R.321 Chain C: D.239, A.257, G.258, G.275, G.276, T.293, G.294 Chain L: S.39 12 PLIP interactions: 8 interactions with chain A, 2 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: A:F.190, A:I.261, A:V.279 Hydrogen bonds: A:Q.243, A:G.264, A:N.281, C:G.276, C:G.294, B:N.317 Water bridges: A:F.190, A:D.223 Salt bridges: B:R.321

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Masoudi, A. et al., Chasing acyl carrier protein through a catalytic cycle of lipid A production. Nature (2014)

Release Date

2013-11-13

Peptides

UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase: ABCDEF
Acyl carrier protein: GHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase

Acyl carrier protein

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