SMTL ID : 2wzc.1

The catalytically active fully closed conformation of human phosphoglycerate kinase in complex with ADP, 3PG and aluminium tetrafluoride

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: K.215, D.374 Ligands: ALF.3, ADP.4 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.374, H2O.18, H2O.19

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 5 residues within 4Å: Chain A: R.65, K.215, V.216, A.217, D.218 Ligand excluded by PLIP

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 10 residues within 4Å: Chain A: R.38, K.215, K.219, G.372, G.373, G.395, G.396 Ligands: MG.1, ADP.4, 3PG.5 No protein-ligand interaction detected (PLIP)

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

ADP.4: 24 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, V.339, G.340, V.341, E.343, G.371, G.372, G.373, D.374, T.375 Ligands: MG.1, ALF.3, 3PG.5 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:A.214, A:K.215, A:G.238, A:G.312, A:N.336, A:E.343, A:G.371, A:G.373, A:D.374, A:D.374, A:T.375, A:T.375 Water bridges: A:K.215 Salt bridges: A:K.215, A:K.219, A:K.219

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

3PG.5: 13 residues within 4Å: Chain A: D.23, N.25, R.38, H.62, R.65, R.122, G.166, T.167, H.169, R.170, K.215 Ligands: ALF.3, ADP.4 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:D.23, A:N.25, A:R.38, A:R.38 Water bridges: A:R.65, A:R.122, A:R.170, A:K.215, A:K.215, A:K.215, A:G.373, A:G.395 Salt bridges: A:R.38, A:H.62, A:R.65, A:R.122, A:R.170, A:K.215, A:K.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cliff, M.J. et al., Transition State Analogue Structures of Human Phosphoglycerate Kinase Establish the Importance of Charge Balance in Catalysis. J.Am.Chem.Soc. (2010)

Release Date

2010-04-14

Peptides

PHOSPHOGLYCERATE KINASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PHOSPHOGLYCERATE KINASE 1

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