SMTL ID : 5ok2.1

Structure of the D10N mutant of beta-phosphoglucomutase from Lactococcus lactis inhibited with glucose 6-phosphate and tetrafluoroaluminate to 1.1A resolution.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.1: 10 residues within 4Å: Chain A: D.8, L.9, N.10, G.46, A.113, S.114, A.115, K.145 Ligands: MG.8, BG6.10 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.8

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 5 residues within 4Å: Chain A: E.18, F.21, R.38, N.41, K.45 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.38, A:K.45 Water bridges: A:K.45 EDO.3: 5 residues within 4Å: Chain A: R.49, N.77, V.81, K.117, N.118 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.49, A:R.49, A:N.77, A:N.118 Water bridges: A:N.118 EDO.4: 5 residues within 4Å: Chain A: S.163, G.182, A.183, L.184, W.216 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.163 EDO.5: 6 residues within 4Å: Chain A: Y.19, M.83, I.84, Q.85, D.86, V.87 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.19, A:I.84, A:D.86 EDO.6: 4 residues within 4Å: Chain A: Y.93, V.188, D.203, T.204 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.204 Water bridges: A:Y.93, A:S.205

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

NA.7: 2 residues within 4Å: Chain A: E.124, N.127 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.124

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.8: 6 residues within 4Å: Chain A: D.8, N.10, E.169, D.170 Ligands: ALF.1, BG6.10 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.8, A:N.10, A:D.170, H2O.2, H2O.3 MG.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x BG6: 6-O-phosphono-beta-D-glucopyranose(Non-covalent)

BG6.10: 18 residues within 4Å: Chain A: D.8, N.10, H.20, L.44, K.45, G.46, V.47, S.48, R.49, S.52, K.76, S.114, A.115, S.116, K.117, N.118 Ligands: ALF.1, MG.8 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:N.10, A:L.44, A:G.46, A:S.52, A:S.52, A:K.117, A:N.118, A:N.118 Water bridges: A:D.8, A:D.8, A:N.10, A:H.20, A:H.20, A:R.49, A:R.49, A:K.76, A:S.116 Salt bridges: A:H.20, A:H.20, A:R.49, A:K.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, L.A. et al., van der Waals Contact between Nucleophile and Transferring Phosphorus Is Insufficient To Achieve Enzyme Transition-State Architecture. Acs Catalysis (2018)

Release Date

2018-08-29

Peptides

Beta-phosphoglucomutase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-phosphoglucomutase

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