SMTL ID : 5cee.1

Malic enzyme from Candidatus Phytoplasma AYWB in complex with NAD and Mg2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 18 residues within 4Å: Chain A: T.186, N.213, G.214, G.216, S.217, A.218, D.238, K.239, V.283, S.284, A.285, I.288, L.306, A.307, N.308, G.329, V.337, N.339 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:T.186 Hydrogen bonds: A:N.213, A:S.217, A:A.218, A:K.239, A:N.308, A:V.337, A:N.339 Water bridges: A:G.216, A:G.216 pi-Cation interactions: A:K.239 NAD.3: 18 residues within 4Å: Chain B: T.186, N.213, G.214, G.216, S.217, A.218, D.238, K.239, V.283, S.284, A.285, I.288, L.306, A.307, N.308, G.329, V.337, N.339 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:T.186 Hydrogen bonds: B:N.213, B:S.217, B:A.218, B:K.239, B:N.308, B:V.337, B:N.339 Water bridges: B:G.216, B:G.216 pi-Cation interactions: B:K.239

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.156, D.157, D.182 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.157, A:D.182, H2O.1, H2O.1, H2O.1 MG.4: 3 residues within 4Å: Chain B: E.156, D.157, D.182 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.157, B:D.182, H2O.1, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alvarez, C.E. et al., The crystal structure of the malic enzyme from Candidatus Phytoplasma reveals the minimal structural determinants for a malic enzyme. Acta Crystallogr D Struct Biol (2018)

Release Date

2016-10-05

Peptides

NAD-dependent malic enzyme: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NAD-dependent malic enzyme