SMTL ID : 4gmz.1

Structure of rat cytosolic PEPCK Ld_2g in complex with Beta-Sulfopyruvate and GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 3 residues within 4Å: Chain A: V.65, L.79, N.208 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.79, A:L.79

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

GTP.2: 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, V.335, R.405, R.436, W.507, F.508, F.516, G.520, F.521, N.524 Ligands: MN.3, MN.4, SPV.5 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:R.436, A:W.507, A:W.507, A:F.521, A:N.524 Water bridges: A:A.287, A:N.292, A:N.292, A:V.335, A:V.335, A:R.405, A:R.436 Salt bridges: A:K.290, A:K.290, A:R.405 pi-Stacking: A:F.521, A:F.521 pi-Cation interactions: A:F.516

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

MN.3: 3 residues within 4Å: Chain A: T.291, D.310 Ligands: GTP.2 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.291, H2O.1, H2O.1, H2O.1 MN.4: 6 residues within 4Å: Chain A: K.244, H.264, K.290, D.311 Ligands: GTP.2, SPV.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.264, A:D.311 MN.6: 1 residues within 4Å: Chain A: E.63 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.63, H2O.13, H2O.13, H2O.14

1 x SPV: SULFOPYRUVATE(Non-covalent)

SPV.5: 13 residues within 4Å: Chain A: R.87, G.236, G.237, K.243, K.244, H.264, S.286, D.311, F.333, R.405, F.476 Ligands: GTP.2, MN.4 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.237, A:S.286, A:R.405 Water bridges: A:R.87, A:R.87, A:K.243, A:S.286, A:R.405 Salt bridges: A:R.87, A:R.87, A:K.244, A:K.244, A:H.264, A:R.405, A:R.405

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, T.A. et al., The {Omega}-loop lid domain of phosphoenolpyruvate carboxykinase is essential for catalytic function. Biochemistry (2012)

Release Date

2013-07-03

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

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