SMTL ID : 4yw9.1

Structure of rat cytosolic pepck in complex with 3-mercaptopicolinic acid and GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

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

GTP.1: 22 residues within 4Å: Chain A: H.266, P.287, S.288, A.289, C.290, G.291, K.292, T.293, N.294, D.313, V.337, R.407, R.438, W.518, F.519, F.527, G.531, F.532, N.535 Ligands: MN.2, MN.5, 1WD.6 33 PLIP interactions: 33 interactions with chain A Hydrogen bonds: A:A.289, A:C.290, A:G.291, A:K.292, A:T.293, A:R.438, A:W.518, A:F.532, A:N.535 Water bridges: A:R.89, A:A.289, A:N.294, A:N.294, A:N.294, A:N.294, A:V.337, A:P.339, A:N.405, A:R.407, A:R.407, A:R.407, A:R.438, A:W.518, A:W.529, A:P.530, A:P.530 Salt bridges: A:K.246, A:K.292, A:K.292, A:R.407 pi-Stacking: A:F.532, A:F.532 pi-Cation interactions: A:F.527

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

MN.2: 6 residues within 4Å: Chain A: K.246, H.266, K.292, D.313 Ligands: GTP.1, 1WD.6 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.266, A:D.313 MN.3: 2 residues within 4Å: Chain A: H.504, E.609 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.504, H2O.7 MN.5: 3 residues within 4Å: Chain A: T.293, D.312 Ligands: GTP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.293, H2O.3, H2O.4, H2O.10

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

NA.4: 3 residues within 4Å: Chain A: V.67, L.81, N.210 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.81, A:N.210

1 x 1WD: 3-sulfanylpyridine-2-carboxylic acid(Non-covalent)

1WD.6: 12 residues within 4Å: Chain A: R.89, Y.237, K.245, K.246, H.266, S.288, D.313, F.335, R.407, F.487 Ligands: GTP.1, MN.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.335 Hydrogen bonds: A:S.288, A:R.407, A:R.407 Water bridges: A:Y.237 Salt bridges: A:R.89, A:K.246, A:H.266, A:R.407 pi-Cation interactions: A:R.407

1 x MOH: METHANOL(Non-functional Binders)

MOH.7: 9 residues within 4Å: Chain A: G.261, W.262, L.263, M.317, K.318, F.319, L.325, M.502, R.505 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.319

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.8: 6 residues within 4Å: Chain A: N.9, G.10, D.12, F.13, A.15, K.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Balan, M.D. et al., Inhibition and Allosteric Regulation of Monomeric Phosphoenolpyruvate Carboxykinase by 3-Mercaptopicolinic Acid. Biochemistry (2015)

Release Date

2015-09-23

Peptides

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphoenolpyruvate carboxykinase, cytosolic [GTP]

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