SMTL ID : 6ulz.1

Adenylation domain of the initiation module of LgrA mutant P483M

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

3 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 4 residues within 4Å: Chain A: R.547, P.548, E.549, L.550 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.549, A:L.550 FMT.2: 5 residues within 4Å: Chain A: A.54, Y.55, N.73, H.75, D.110 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.55, A:N.73, A:N.73, A:H.75 FMT.3: 6 residues within 4Å: Chain A: S.52, Y.55, Y.57, I.58, L.59, I.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.52, A:L.59

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.4: 17 residues within 4Å: Chain A: T.353, S.354, G.464, G.465, D.466, V.467, N.481, G.482, Y.483, G.484, M.485, T.486, I.506, D.570, F.582, R.585 Ligands: KIV.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.465, A:N.481, A:G.482, A:G.484, A:T.486, A:R.585

1 x KIV: 3-METHYL-2-OXOBUTANOIC ACID(Non-covalent)

KIV.5: 9 residues within 4Å: Chain A: D.398, G.399, Y.441, G.464, G.465, G.484, I.490, M.491 Ligands: APC.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.490 Hydrogen bonds: A:Y.441

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alonzo, D.A. et al., Structural basis of keto acid utilization in nonribosomal depsipeptide synthesis. Nat.Chem.Biol. (2020)

Release Date

2020-02-19

Peptides

Linear gramicidin synthase subunit A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Linear gramicidin synthase subunit A