SMTL ID : 3kia.1

Crystal structure of mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.1: 16 residues within 4Å: Chain A: P.101, S.102, R.103, V.105, V.132, D.133, A.134, E.154, G.166, K.167, A.170, D.187, A.188, D.189, Y.279 Ligands: MG.5 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.102, A:R.103, A:R.103, A:V.132, A:A.188, A:D.189 Water bridges: A:G.166 Salt bridges: A:E.154, A:K.167 5GP.6: 16 residues within 4Å: Chain B: P.101, S.102, R.103, V.105, V.132, D.133, A.134, E.154, G.166, K.167, A.170, D.187, A.188, D.189, Y.279 Ligands: MG.8 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.102, B:R.103, B:V.132, B:A.188, B:D.189, B:D.189, B:Y.279 Salt bridges: B:E.154, B:K.167

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

CL.2: 3 residues within 4Å: Chain A: R.325, E.373, L.374 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: R.325, R.329, L.352 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain B: R.325, S.353, L.374 Ligand excluded by PLIP

3 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: Q.351, D.354 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:Q.351, A:D.354, H2O.1, H2O.3, H2O.5 MG.5: 2 residues within 4Å: Chain A: D.189 Ligands: 5GP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.189 MG.8: 2 residues within 4Å: Chain B: D.189 Ligands: 5GP.6 1 PLIP interactions: 1 Ligand-Ligand interactions Metal complexes: 5GP.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Empadinhas, N. et al., Functional and structural characterization of a novel mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus reveals its dual substrate specificity. Mol.Microbiol. (2011)

Release Date

2010-11-03

Peptides

Mannosyl-3-phosphoglycerate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Mannosyl-3-phosphoglycerate synthase

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