SMTL ID : 2wf8.1

Structure of Beta-Phosphoglucomutase inhibited with Glucose-6- phosphate, Glucose-1-phosphate and Beryllium trifluoride

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x BEF: BERYLLIUM TRIFLUORIDE ION(Covalent)

BEF.1: 10 residues within 4Å: Chain A: D.8, L.9, D.10, G.46, S.114, A.115, K.145 Ligands: MG.2, G1P.3, BG6.4 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: D.8, D.10, E.169, D.170 Ligands: BEF.1, BG6.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.8, A:D.10, A:D.170, H2O.9, H2O.9

1 x G1P: 1-O-phosphono-alpha-D-glucopyranose(Non-covalent)

G1P.3: 17 residues within 4Å: Chain A: D.10, H.20, W.24, L.44, K.45, G.46, V.47, S.48, R.49, S.52, K.76, A.115, S.116, K.117, N.118 Ligands: BEF.1, BG6.4 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:D.10, A:W.24, A:G.46, A:V.47, A:S.52, A:S.116, A:S.116, A:K.117, A:N.118, A:N.118 Water bridges: A:H.20, A:H.20, A:R.49, A:K.76, A:K.76, A:S.116 Salt bridges: A:H.20, A:H.20, A:R.49, A:K.76, A:K.76

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

BG6.4: 18 residues within 4Å: Chain A: D.10, H.20, W.24, L.44, K.45, G.46, V.47, R.49, S.52, N.77, S.114, A.115, S.116, K.117, N.118 Ligands: BEF.1, MG.2, G1P.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:D.10, A:W.24, A:G.46, A:S.52, A:A.115, A:S.116, A:K.117, A:N.118 Water bridges: A:H.20, A:H.20, A:R.49, A:K.76, A:A.115, A:S.116 Salt bridges: A:H.20, A:H.20, A:R.49, A:K.76

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

NA.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) NA.6: 2 residues within 4Å: Chain A: G.95, Q.98 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.95

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 4 residues within 4Å: Chain A: M.1, K.213, W.216, L.217 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.1 Water bridges: A:M.1, A:M.1 PEG.8: 7 residues within 4Å: Chain A: Q.54, L.57, D.58, D.61, K.62, K.63, V.64 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.54, A:L.57, A:K.62, A:V.64, A:V.64 PEG.9: 3 residues within 4Å: Chain A: Y.19, K.82, M.83 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Griffin, J.L. et al., Near attack conformers dominate beta-phosphoglucomutase complexes where geometry and charge distribution reflect those of substrate. Proc. Natl. Acad. Sci. U.S.A. (2012)

Release Date

2010-05-26

Peptides

BETA-PHOSPHOGLUCOMUTASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

BETA-PHOSPHOGLUCOMUTASE

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