SMTL ID : 1a3w.1

PYRUVATE KINASE FROM SACCHAROMYCES CEREVISIAE COMPLEXED WITH FBP, PG, MN2+ AND K+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-tetramer

Ligands

4 x PGA: 2-PHOSPHOGLYCOLIC ACID(Non-covalent)

PGA.1: 11 residues within 4Å: Chain A: R.49, D.84, K.240, E.242, A.263, R.264, G.265, D.266, T.298 Ligands: MN.3, K.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.266, A:T.298, A:T.298 Salt bridges: A:R.49 PGA.5: 11 residues within 4Å: Chain B: R.49, D.84, K.240, E.242, A.263, R.264, G.265, D.266, T.298 Ligands: MN.7, K.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.266, B:T.298, B:T.298 Salt bridges: B:R.49, B:K.240 PGA.9: 11 residues within 4Å: Chain C: R.49, D.84, K.240, E.242, A.263, R.264, G.265, D.266, T.298 Ligands: MN.11, K.12 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.266, C:T.298 Salt bridges: C:R.49 PGA.13: 11 residues within 4Å: Chain D: R.49, D.84, K.240, E.242, A.263, R.264, G.265, D.266, T.298 Ligands: MN.15, K.16 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:D.266, D:T.298 Salt bridges: D:R.49, D:K.240

4 x FBP: 1,6-di-O-phosphono-beta-D-fructofuranose(Non-covalent)

FBP.2: 15 residues within 4Å: Chain A: L.401, S.402, T.403, S.404, G.405, T.406, T.407, P.408, W.452, R.459, Q.483, G.484, G.490, H.491, S.492 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.402, A:T.403, A:S.404, A:G.405, A:T.407, A:T.407, A:G.484, A:G.484, A:G.490, A:S.492 Salt bridges: A:R.459 FBP.6: 14 residues within 4Å: Chain B: L.401, S.402, T.403, S.404, G.405, T.406, T.407, W.452, R.459, Q.483, G.484, G.490, H.491, S.492 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:T.403, B:S.404, B:G.405, B:T.406, B:T.407, B:T.407, B:T.407, B:W.452, B:G.484, B:G.490, B:S.492 Salt bridges: B:R.459 FBP.10: 15 residues within 4Å: Chain C: L.401, S.402, T.403, S.404, G.405, T.406, T.407, P.408, W.452, R.459, Q.483, G.484, G.490, H.491, S.492 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:S.402, C:T.403, C:S.404, C:G.405, C:T.407, C:G.484, C:G.484, C:G.490, C:S.492 Salt bridges: C:R.459 FBP.14: 14 residues within 4Å: Chain D: L.401, S.402, T.403, S.404, G.405, T.406, T.407, W.452, R.459, Q.483, G.484, G.490, H.491, S.492 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:T.403, D:S.404, D:G.405, D:T.406, D:T.407, D:T.407, D:W.452, D:G.484, D:G.490, D:S.492 Salt bridges: D:R.459

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 3 residues within 4Å: Chain A: E.242, D.266 Ligands: PGA.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:E.242, A:D.266, PGA.1 MN.7: 3 residues within 4Å: Chain B: E.242, D.266 Ligands: PGA.5 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:E.242, B:D.266, PGA.5 MN.11: 3 residues within 4Å: Chain C: E.242, D.266 Ligands: PGA.9 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:E.242, C:D.266, PGA.9 MN.15: 3 residues within 4Å: Chain D: E.242, D.266 Ligands: PGA.13 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Ligand interactions Metal complexes: D:E.242, D:D.266, PGA.13

4 x K: POTASSIUM ION(Non-covalent)

K.4: 6 residues within 4Å: Chain A: N.51, S.53, D.84, T.85, K.86 Ligands: PGA.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.84 K.8: 6 residues within 4Å: Chain B: N.51, S.53, D.84, T.85, K.86 Ligands: PGA.5 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.84, B:T.85 K.12: 6 residues within 4Å: Chain C: N.51, S.53, D.84, T.85, K.86 Ligands: PGA.9 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:D.84 K.16: 6 residues within 4Å: Chain D: N.51, S.53, D.84, T.85, K.86 Ligands: PGA.13 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.84, D:T.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jurica, M.S. et al., The allosteric regulation of pyruvate kinase by fructose-1,6-bisphosphate. Structure (1998)

Release Date

1998-05-27

Peptides

PYRUVATE KINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

PYRUVATE KINASE

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