SMTL ID : 6npf.1 (2 other biounits)

Structure of E.coli enolase in complex with an analog of the natural product SF-2312 metabolite.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.57 Å

Oligo State

homo-dimer

Ligands

2 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.1: 15 residues within 4Å: Chain A: G.57, A.58, S.59, Q.184, E.185, E.226, D.263, E.307, D.334, L.357, K.359, R.388, S.389, K.410 Ligands: MG.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:A.58, A:S.59, A:S.59, A:S.59, A:Q.184, A:E.226, A:K.359, A:R.388, A:S.389 Water bridges: A:E.64, A:E.185, A:E.185 Salt bridges: A:K.359, A:K.359, A:R.388, A:K.410 TLA.6: 15 residues within 4Å: Chain B: G.57, A.58, S.59, Q.184, E.185, E.226, D.263, E.307, D.334, L.357, K.359, R.388, S.389, K.410 Ligands: MG.7 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:A.58, B:S.59, B:S.59, B:Q.184, B:E.226, B:E.307, B:K.359, B:R.388, B:S.389, B:K.410 Salt bridges: B:K.359, B:K.359, B:R.388, B:K.410

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: K.197, E.198, R.201 Chain B: R.75 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Salt bridges: A:K.197, A:R.201, B:R.75 SO4.4: 4 residues within 4Å: Chain A: R.75 Chain B: K.197, E.198, R.201 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:R.201, A:R.75 SO4.9: 2 residues within 4Å: Chain B: G.14, R.15 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.15 Salt bridges: B:R.15

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: D.263, E.307, D.308, D.334 Ligands: TLA.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.263, A:E.307, A:D.334, H2O.1 MG.7: 5 residues within 4Å: Chain B: D.263, E.307, D.308, D.334 Ligands: TLA.6 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.263, B:E.307, B:D.334, H2O.3

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 1 residues within 4Å: Ligands: GOL.8 No protein-ligand interaction detected (PLIP) GOL.8: 2 residues within 4Å: Chain B: H.43 Ligands: GOL.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krucinska, J. et al., Functional and structural basis of E. coli enolase inhibition by SF2312: a mimic of the carbanion intermediate. Sci Rep (2019)

Release Date

2019-11-27

Peptides

Enolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Enolase

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