SMTL ID : 5v9f.1

Structure of the H477R variant of rat cytosolic PEPCK in complex with beta sulfopyruvate and GTP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 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.4 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.291, H2O.1, H2O.1, H2O.2 MN.2: 5 residues within 4Å: Chain A: K.244, H.264, D.311 Ligands: GTP.4, 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 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.63, H2O.2

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

NA.3: 4 residues within 4Å: Chain A: G.64, V.65, L.79, N.208 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.208

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

GTP.4: 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.516, F.517, F.525, G.529, F.530, N.533 Ligands: MN.1, MN.2, SPV.5 16 PLIP interactions: 16 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:V.335, A:V.335 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 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.485 Ligands: MN.2, GTP.4 13 PLIP interactions: 13 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 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

Cui, D.S. et al., Asymmetric Anchoring Is Required for Efficient Omega-Loop Opening and Closing in Cytosolic Phosphoenolpyruvate Carboxykinase. Biochemistry (2017)

Release Date

2017-04-12

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

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