SMTL ID : 6sla.2 (1 other biounit)

Crystal structure of isomerase PaaG mutant - D136N with Oxepin-CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-trimer

Ligands

3 x LHQ: ~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 2-(2,5-dihydrooxepin-7-yl)ethanethioate(Non-covalent)

LHQ.1: 20 residues within 4Å: Chain A: L.21, A.23, R.55, A.59, Q.61, D.62, L.63, H.76, L.77, Y.80, V.101, A.103, G.104, A.105, A.127, F.128, I.131, L.133, N.136 Chain B: F.243 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Q.61, A:L.77, A:Y.80, A:V.101, A:A.103, A:A.127, A:F.128 Hydrogen bonds: A:A.59, A:Q.61, A:Q.61, A:L.63, A:A.105, A:N.136 Salt bridges: A:R.55, A:R.55 LHQ.2: 19 residues within 4Å: Chain B: L.21, R.55, A.59, G.60, Q.61, D.62, L.63, Y.80, V.101, A.103, G.104, A.105, A.127, F.128, I.131, L.133, N.136 Chain C: F.243, K.246 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:A.59, B:Q.61, B:Y.80, B:V.101, B:A.105, B:A.127, B:F.128, B:L.133 Hydrogen bonds: B:A.59, B:Q.61, B:Q.61, B:L.63, B:A.105 Salt bridges: B:R.55, B:R.161, C:K.246 LHQ.3: 19 residues within 4Å: Chain A: F.243 Chain C: K.20, L.21, A.59, Q.61, D.62, L.63, H.76, Y.80, V.101, A.103, G.104, A.105, A.127, F.128, I.131, L.133, N.136, R.161 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:A.59, C:Y.80, C:V.101 Hydrogen bonds: C:A.59, C:Q.61, C:Q.61, C:D.62, C:L.63, C:A.105 Salt bridges: C:R.161, A:K.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spieker, M. et al., Structural and Mechanistic Basis of an Oxepin-CoA Forming Isomerase in Bacterial Primary and Secondary Metabolism. Acs Chem.Biol. (2019)

Release Date

2019-12-11

Peptides

Enoyl-CoA hydratase/carnithine racemase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
DDD

B
EEE

C
FFF

Enoyl-CoA hydratase/carnithine racemase

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