SMTL ID : 5fh2.1

The structure of rat cytosolic PEPCK variant E89Q in complex with GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

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

MN.1: 3 residues within 4Å: Chain A: T.291, D.310 Ligands: GTP.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.291, H2O.3, H2O.6, H2O.6 MN.2: 5 residues within 4Å: Chain A: K.244, H.264, K.290, D.311 Ligands: GTP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.264, A:D.311, H2O.5, H2O.19

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

GTP.3: 21 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.516, F.517, F.525, G.529, F.530, N.533 Ligands: MN.1, MN.2 28 PLIP interactions: 28 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:F.530, A:N.533 Water bridges: A:A.287, A:N.292, A:V.335, A:V.335, A:G.338, A:R.405, A:R.405, A:R.405, A:R.405, A:R.436, A:W.516, A:W.527, A:W.527, 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 EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 9 residues within 4Å: Chain A: R.87, Y.235, G.236, G.237, K.244, S.286, F.333, N.403, R.405 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.87, A:G.237 Water bridges: A:N.238, A:N.238, A:R.405 Salt bridges: A:R.405

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

NA.5: 3 residues within 4Å: Chain A: V.65, L.79, N.208 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.65, A:L.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, T.A. et al., Utilization of Substrate Intrinsic Binding Energy for Conformational Change and Catalytic Function in Phosphoenolpyruvate Carboxykinase. Biochemistry (2016)

Release Date

2016-11-09

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

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