SMTL ID : 7ly6.1

Structure of a trans-acting NRPS oxidase, BmdC, involved in bacillamide biosynthesis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.73 Å

Oligo State

homo-dimer

Ligands

2 x GLY: GLYCINE(Non-covalent)

GLY.1: 8 residues within 4Å: Chain A: R.151, G.296 Chain B: A.186, G.187, K.261, Y.262 Ligands: FMN.2, PO4.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.187, B:Y.262 GLY.4: 8 residues within 4Å: Chain A: A.186, G.187, K.261, Y.262 Chain B: R.151, G.296 Ligands: FMN.5, PO4.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.187, A:Y.262

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.2: 24 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.297, H.317 Chain B: A.184, S.185, A.186, G.187, G.188, Y.190, Y.269, I.272, E.273, I.276 Ligands: GLY.1, PO4.3 16 PLIP interactions: 9 interactions with chain A, 6 interactions with chain B, 1 Ligand-Ligand interactions Hydrogen bonds: A:S.149, A:R.151, A:R.151, A:N.238, A:N.238, A:G.296, B:S.185, B:S.185, B:G.187, B:Y.190, G.1 Water bridges: A:R.148 Salt bridges: A:R.147, A:R.148 Hydrophobic interactions: B:A.186, B:I.276 FMN.5: 24 residues within 4Å: Chain A: A.184, S.185, A.186, G.187, G.188, Y.190, Y.269, I.272, E.273, I.276 Chain B: R.147, R.148, S.149, R.151, N.238, I.241, C.293, S.294, I.295, G.296, H.297, H.317 Ligands: GLY.4, PO4.6 16 PLIP interactions: 9 interactions with chain B, 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: B:S.149, B:R.151, B:R.151, B:N.238, B:N.238, B:G.296, A:S.185, A:S.185, A:G.187, A:Y.190, G.4 Water bridges: B:R.148 Salt bridges: B:R.147, B:R.148 Hydrophobic interactions: A:A.186, A:I.276

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 5 residues within 4Å: Chain A: R.151 Chain B: G.187, K.261 Ligands: GLY.1, FMN.2 3 PLIP interactions: 1 interactions with chain B, 1 Ligand-Ligand interactions, 1 interactions with chain A Salt bridges: B:K.261, A:R.151 Hydrogen bonds: G.1 PO4.6: 5 residues within 4Å: Chain A: G.187, K.261 Chain B: R.151 Ligands: GLY.4, FMN.5 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 Ligand-Ligand interactions Salt bridges: A:K.261, B:R.151 Hydrogen bonds: G.4

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, NRPS oxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

BmdC, NRPS oxidase

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