SMTL ID : 7e1s.1 (1 other biounit)

Crystal structure of dehydrogenase/isomerase FabX from Helicobacter pylori in complex with octanoyl-ACP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

hetero-1-1-mer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: G.31, G.32, M.33, G.34, I.37, N.108, L.110, I.156, E.184, L.187, S.188, G.189, G.190, G.229, G.230, Q.249, M.250, A.251, T.252, F.348, T.349, G.350 Ligands: 66S.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:M.33, A:I.37, A:F.348 Hydrogen bonds: A:G.32, A:G.34, A:N.108, A:N.108, A:E.184, A:G.189, A:G.229, A:G.230, A:Q.249, A:A.251, A:T.252 Water bridges: A:G.32, A:G.32, A:G.32, A:I.109, A:I.231, A:I.231, A:N.352

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.2: 12 residues within 4Å: Chain A: P.283, C.309, S.311, N.312, C.313, V.314, C.317, G.320, A.323, C.329, I.330, A.331 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions, Salt bridges: A:D.332 Metal complexes: A:C.309, A:C.313, A:C.317, A:C.329, H2O.1

1 x 66S: S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] octanethioate(Covalent)

66S.3: 18 residues within 4Å: Chain A: V.58, L.110, G.134, A.135, G.136, L.137, I.156, I.157, S.158, E.184, G.190, H.191, G.193, Y.286, L.334 Chain B: S.44, L.45 Ligands: FMN.1 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:V.58, A:I.156, A:Y.286, A:L.334, B:L.45 Hydrogen bonds: A:G.136, A:S.158, A:E.184, A:H.191, A:Y.286, A:Y.286, B:S.44 Water bridges: A:S.188, A:S.188

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, J. et al., Helicobacter pylori FabX contains a [4Fe-4S] cluster essential for unsaturated fatty acid synthesis. Nat Commun (2021)

Release Date

2021-12-01

Peptides

2-nitropropane dioxygenase: A
Acyl carrier protein,Acyl carrier protein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

2-nitropropane dioxygenase

Acyl carrier protein,Acyl carrier protein

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