SMTL ID : 2x15.1

The catalytically active fully closed conformation of human phosphoglycerate kinase in complex with ADP and 1,3- bisphosphoglycerate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: K.215, D.374 Ligands: ADP.2, X15.3, ATP.5 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.374, H2O.3, H2O.4

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 23 residues within 4Å: Chain A: G.213, A.214, K.215, K.219, G.237, G.238, F.241, L.256, G.312, L.313, N.336, P.338, G.340, V.341, E.343, G.371, G.372, G.373, D.374, T.375 Ligands: MG.1, X15.3, ATP.5 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:A.214, A:K.215, A:G.238, A:G.312, A:N.336, A:G.373, A:D.374, A:T.375 Salt bridges: A:K.215, A:K.219, A:K.219

1 x X15: 1,3-BISPHOSPHOGLYCERIC ACID(Non-covalent)

X15.3: 19 residues within 4Å: Chain A: D.23, N.25, R.38, H.62, R.65, R.122, G.166, T.167, R.170, K.215, K.219, G.372, G.373, G.395, G.396 Ligands: MG.1, ADP.2, 3PG.4, ATP.5 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:D.23, A:N.25, A:R.38, A:G.373, A:G.395, A:G.396 Water bridges: A:K.215, A:K.215, A:D.374, A:D.374, A:A.397 Salt bridges: A:R.38, A:R.38, A:H.62, A:R.65, A:R.122, A:R.170, A:K.215, A:K.215, A:K.215, A:K.219

1 x 3PG: 3-PHOSPHOGLYCERIC ACID(Non-covalent)

3PG.4: 12 residues within 4Å: Chain A: D.23, N.25, R.38, H.62, R.65, R.122, G.166, T.167, R.170, K.215 Ligands: X15.3, ATP.5 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:D.23, A:N.25, A:R.38 Water bridges: A:R.38, A:K.215, A:K.215, A:G.373 Salt bridges: A:R.38, A:H.62, A:R.65, A:R.122, A:R.170, A:K.215, A:K.215

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.5: 26 residues within 4Å: Chain A: R.38, G.213, A.214, K.215, K.219, G.237, G.238, F.241, L.256, G.312, L.313, N.336, P.338, G.340, V.341, E.343, G.372, G.373, D.374, T.375, G.395, G.396 Ligands: MG.1, ADP.2, X15.3, 3PG.4 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:R.38, A:A.214, A:K.215, A:G.238, A:G.312, A:G.373, A:D.374, A:T.375, A:G.396 Water bridges: A:R.38, A:R.38, A:G.395, A:A.397 Salt bridges: A:K.215, A:K.215, A:K.219, A:K.219, A:K.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bowler, M.W. et al., The Structure of Human Phosphoglycerate Kinase in its Fully Active Conformation in Complex with Ground State Analoges. To be Published

Release Date

2011-02-09

Peptides

PHOSPHOGLYCERATE KINASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PHOSPHOGLYCERATE KINASE 1

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