SMTL ID : 9ej2.1

Rat cytosolic PEPCK in complex with GTP and oxalate (313K)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

monomer

Ligands

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

MN.1: 3 residues within 4Å: Chain A: T.291, D.310 Ligands: GTP.5 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.291, H2O.1, H2O.1, H2O.1 MN.2: 6 residues within 4Å: Chain A: K.244, H.264, K.290, D.311 Ligands: OXL.4, GTP.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.264, A:D.311 MN.3: 2 residues within 4Å: Chain A: H.502, E.607 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.502, A:E.607, H2O.3

1 x OXL: OXALATE ION(Non-covalent)

OXL.4: 10 residues within 4Å: Chain A: R.87, Y.235, K.244, H.264, S.286, D.311, R.405, A.467 Ligands: MN.2, GTP.5 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:Y.235, A:Y.235, A:S.286 Water bridges: A:R.87, A:Y.235, A:K.243, A:R.405, A:R.405 Salt bridges: A:R.87, A:K.243, A:K.244, A:K.244, A:H.264, A:R.405, A:R.405

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

GTP.5: 22 residues within 4Å: Chain A: H.264, P.285, S.286, A.287, C.288, G.289, K.290, T.291, N.292, D.311, P.337, G.338, R.405, R.436, W.516, F.517, G.529, F.530, N.533 Ligands: MN.1, MN.2, OXL.4 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:A.287, A:C.288, A:G.289, A:K.290, A:T.291, A:T.291, A:N.292, A:N.292, A:R.436, A:F.530, A:N.533 Water bridges: A:V.335, A:V.335, A:G.338, A:R.436, A:W.516, A:P.528 Salt bridges: A:K.290, A:K.290, A:R.405 pi-Stacking: A:F.530, A:F.530 pi-Cation interactions: A:F.525

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 7 residues within 4Å: Chain A: L.153, W.260, W.314, K.316, R.324, I.326, E.424 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McLeod, M.J. et al., A structural perspective on the temperature dependent activity of enzymes. Structure (2025)

Release Date

2025-04-09

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

Related Entries With Identical Sequence