SMTL ID : 2wvm.1

H309A mutant of Mannosyl-3-phosphoglycerate synthase from Thermus thermophilus HB27 in complex with GDP-alpha-D-Mannose and Mg(II)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.98 Å

Oligo State

homo-dimer

Ligands

2 x GDD: GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-MANNOSE(Non-covalent)

GDD.1: 18 residues within 4Å: Chain A: P.60, T.61, R.62, E.64, A.85, N.87, Q.116, G.143, K.144, D.167, A.168, D.169, Y.218, N.248, G.250, Y.268, E.271 Ligands: MG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:T.61, A:R.62, A:R.62, A:E.64, A:E.64, A:A.85, A:Q.116, A:Q.116, A:G.143, A:D.167, A:A.168, A:D.169, A:G.250 GDD.4: 19 residues within 4Å: Chain B: P.60, T.61, R.62, E.64, A.85, N.87, Q.116, S.142, G.143, K.144, G.147, D.167, A.168, D.169, N.248, G.250, Y.268, E.271 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.62, B:R.62, B:E.64, B:A.85, B:Q.116, B:G.143, B:K.144, B:D.167, B:A.168, B:D.169, B:G.250, B:Y.268

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.169 Ligands: GDD.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.169 MG.5: 2 residues within 4Å: Chain B: D.169 Ligands: GDD.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.169, B:D.169

3 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain A: N.7, H.8, E.19 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.8, A:E.19, A:E.19, H2O.1 ZN.6: 3 residues within 4Å: Chain B: H.8, E.19, D.242 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.8, B:E.19, B:D.242, B:D.242, H2O.1 ZN.7: 2 residues within 4Å: Chain B: E.292, H.296 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.292, B:E.292, B:H.296

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goncalves, S. et al., Structural Analysis of Thermus Thermophilus Hb27 Mannosyl-3-Phosphoglycerate Synthase Provides Evidence for a Second Catalytic Metal Ion and New Insight Into the Retaining Mechanism of Glycosyltransferases. J.Biol.Chem. (2010)

Release Date

2010-03-31

Peptides

MANNOSYL-3-PHOSPHOGLYCERATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MANNOSYL-3-PHOSPHOGLYCERATE SYNTHASE