SMTL ID : 7zz6.1

Cryo-EM structure of "CT-CT dimer" of Lactococcus lactis pyruvate carboxylase with acetyl-CoA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: V.525, K.526, T.528, D.759 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.525, A:T.528, A:D.759, H2O.2 MG.4: 4 residues within 4Å: Chain B: V.525, K.526, T.528, D.759 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:V.525, B:T.528, B:D.759, B:D.759, H2O.4

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

MN.2: 5 residues within 4Å: Chain A: D.540, K.709, H.738, H.740, Q.774 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.540, A:H.738, A:H.740, H2O.2 MN.5: 5 residues within 4Å: Chain B: D.540, K.709, H.738, H.740, Q.774 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.540, B:H.738, B:H.740, H2O.6

2 x PYR: PYRUVIC ACID(Non-covalent)

PYR.3: 10 residues within 4Å: Chain A: R.539, Q.543, G.577, A.578, L.610, R.612, F.645, K.709, V.872, T.873 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.872 Hydrogen bonds: A:R.539, A:R.539, A:Q.543, A:Q.543, A:A.578 Salt bridges: A:R.539, A:R.612 PYR.6: 10 residues within 4Å: Chain B: R.539, Q.543, G.577, A.578, L.610, R.612, F.645, K.709, V.872, T.873 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.872 Hydrogen bonds: B:R.539, B:R.539, B:Q.543, B:A.578, B:T.873 Salt bridges: B:R.612

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Alonso, J.P. et al., CryoEM structural exploration of catalytically active enzyme pyruvate carboxylase. Nat Commun (2022)

Release Date

2022-12-28

Peptides

Pyruvate carboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

Pyruvate carboxylase

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