SMTL ID : 7ly7.1

Crystal structure of the elongation module of the bacillamide NRPS, BmdB, in complex with the oxidase BmdC

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.80 Å

Oligo State

hetero-2-2-mer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 16 residues within 4Å: Chain A: R.147, R.148, S.149, R.151, N.238, I.241, C.293, S.294, I.295, G.296, H.317 Chain C: S.185, A.186, G.187, G.188, Y.190 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:R.148, A:S.149, A:S.149, A:S.149, A:S.149, A:R.151, A:N.238, A:N.238, A:G.296, C:G.187, C:G.188 Hydrophobic interactions: C:A.186 FMN.3: 16 residues within 4Å: Chain A: S.185, A.186, G.187, G.188, Y.190 Chain C: R.147, R.148, S.149, R.151, N.238, I.241, C.293, S.294, I.295, G.296, H.317 13 PLIP interactions: 4 interactions with chain A, 9 interactions with chain C Hydrophobic interactions: A:A.186 Hydrogen bonds: A:G.187, A:G.188, A:Y.190, C:R.148, C:S.149, C:S.149, C:S.149, C:S.149, C:R.151, C:N.238, C:N.238, C:G.296

2 x YOA: 5'-{[(2R,3S)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-sulfanylbutane-1-sulfonyl]amino}-5'-deoxyadenosine(Covalent)

YOA.2: 19 residues within 4Å: Chain B: S.634, F.638, L.640, V.682, I.685, S.708, G.709, D.710, L.732, G.734, A.735, T.736, I.740, W.741, Y.759, D.822, F.834, S.981, I.982 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.982 Hydrogen bonds: B:V.682, B:G.709, B:L.732, B:T.736, B:W.741 pi-Stacking: B:Y.759, B:F.834 YOA.4: 19 residues within 4Å: Chain D: S.634, F.638, L.640, V.682, I.685, S.708, G.709, D.710, L.732, G.734, A.735, T.736, I.740, W.741, Y.759, D.822, F.834, S.981, I.982 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:I.982 Hydrogen bonds: D:V.682, D:G.709, D:L.732, D:T.736, D:W.741 pi-Stacking: D:Y.759, D:F.834

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fortinez, C.M. et al., Structures and function of a tailoring oxidase in complex with a nonribosomal peptide synthetase module. Nat Commun (2022)

Release Date

2022-02-02

Peptides

BmdC, Oxidase: AC
BmdB, Bacillamide NRPS: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
B

B
A

D
A

BmdC, Oxidase

BmdB, Bacillamide NRPS