SMTL ID : 7l36.1

PEPCK steady-state structure with Mn and GTP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

monomer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: K.246, H.266, K.292, D.313 Ligands: GTP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.266, A:D.313, H2O.8, H2O.13 MN.2: 4 residues within 4Å: Chain A: Q.453, L.500, H.504, E.609 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.504, A:E.609, H2O.5 MN.4: 6 residues within 4Å: Chain A: T.293, D.312, G.336, V.337, R.407 Ligands: GTP.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.293, H2O.2, H2O.3, H2O.4

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.3: 24 residues within 4Å: Chain A: K.246, H.266, F.286, P.287, S.288, A.289, C.290, G.291, K.292, T.293, N.294, D.313, V.337, G.340, R.407, R.438, W.518, F.519, F.527, G.531, F.532, N.535 Ligands: MN.1, MN.4 28 PLIP interactions: 28 interactions with chain A Hydrogen bonds: A:S.288, A:A.289, A:C.290, A:G.291, A:K.292, A:T.293, A:F.532, A:N.535 Water bridges: A:A.289, A:N.294, A:N.294, A:V.337, A:V.337, A:N.405, A:R.407, A:R.407, A:R.407, A:R.407, A:R.438, A:W.518, A:W.518, A:W.529 Salt bridges: A:K.292, A:K.292, A:R.407 pi-Stacking: A:F.532, A:F.532 pi-Cation interactions: A:F.527

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain A: H.61, E.65 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Clinger, J.A. et al., Millisecond mix-and-quench crystallography (MMQX) enables time-resolved studies of PEPCK with remote data collection. Iucrj (2021)

Release Date

2021-10-13

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

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