SMTL ID : 6bfz.2 (2 other biounits)

Crystal structure of enolase from E. coli with a mixture of apo form, substrate, and product form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.263, E.307, D.308, D.334 Ligands: PEP.2, 2PG.3 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.8: 5 residues within 4Å: Chain B: D.263, E.307, D.334, K.410 Ligands: 2PG.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.263, B:E.307, B:D.334, H2O.6

1 x PEP: PHOSPHOENOLPYRUVATE(Non-functional Binders)

PEP.2: 15 residues within 4Å: Chain A: G.57, A.58, S.59, Q.184, E.185, E.226, D.263, E.307, D.334, K.359, R.388, S.389, K.410 Ligands: MG.1, 2PG.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:A.58, A:Q.184, A:S.389 Water bridges: A:D.334 Salt bridges: A:K.359, A:K.359, A:R.388, A:K.410

2 x 2PG: 2-PHOSPHOGLYCERIC ACID(Non-covalent)

2PG.3: 17 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, H.387, R.388, S.389, K.410 Ligands: MG.1, PEP.2 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:A.58, A:S.59, A:Q.184, A:S.389, A:S.389, A:K.410 Water bridges: A:N.169, A:N.169, A:D.334, A:D.334 Salt bridges: A:K.359, A:K.359, A:R.388, A:K.410 2PG.7: 16 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, H.387, R.388, S.389, K.410 Ligands: MG.8 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:A.58, B:S.59, B:Q.184, B:H.387, B:S.389, B:S.389, B:K.410 Water bridges: B:N.169 Salt bridges: B:K.359, B:K.359, B:R.388, B:K.410

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

SO4.4: 4 residues within 4Å: Chain A: K.197, E.198, R.201 Chain B: R.75 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:E.198 Salt bridges: A:K.197, A:R.201, B:R.75 SO4.5: 4 residues within 4Å: Chain A: R.33, N.35, K.79 Chain B: H.208 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.35 Salt bridges: A:R.33, A:K.79, B:H.208 SO4.9: 4 residues within 4Å: Chain A: H.208 Chain B: R.33, N.35, K.79 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.35, B:N.35, B:K.79 Salt bridges: B:R.33, A:H.208 SO4.10: 3 residues within 4Å: Chain A: R.75 Chain B: E.198, R.201 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.75, B:K.197, B:R.201

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 3 residues within 4Å: Chain A: D.72, K.73, S.74 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.72

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 3 residues within 4Å: Chain A: R.15 Chain B: G.14, R.15 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.15, B:R.15, A:R.15, A:R.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krucinska, J. et al., Structural and Functional Studies of Bacterial Enolase, a Potential Target against Gram-Negative Pathogens. Biochemistry (2019)

Release Date

2018-10-31

Peptides

Enolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Enolase

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